ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
PPT, BS, UA-tract
cis-regulatory elements

Sequence

atgc intronic sequence ATGC exonic sequence

...ggttatttagaaatgtatttagattattctgtattgaattgttttttctgtgggagctgctggtgttacttgtaatcacatttcaacttctctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCTGAGTTCATCAGCTACCCCATCTCCCTGTGGACTGAAAAGACAACAGAGA

Basic information

species	Zea mays
transcript	GRMZM2G112165_T01
intron #	2
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G112165_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os09g30439.1 (Oryza sativa), 3'ss of exon 2

ggttatttagaaatgtatttagattattctgtattgaattgttttttctgtgggagctgctggtgttacttgtaatca-catttcaacttctctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCTGAGTTCATCAGCTACCCCATCTCCCTGTGGACTGAAAAGACAACAGAGA
  || || | | |  || ||  ||| || ||| |||  |  | | |  ||||    ||    || |    | |||| | ||  |  | || |  |||||||||||| |||||||||||||||||||||||||||||||| |||||||| |||||||||||||||||||| |||||||| |||||||| |||||||| ||||
ccttgttgaaataaatacttgtattgtt-tgttttgtttcttgtctcttgtgttctcttgctgtttgttgtttaataaacaactgcaatttttgcttgcagCTGGAATACCTTGAGGAGCGTCGCCTCAAGGATCTGGTGAAGAAGCATTCTGAGTTCATCAGCTACCCTATCTCCCTATGGACTGAGAAGACAACTGAGA

upper sequence: GRMZM2G112165_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os09g30412.1 (Oryza sativa), 3'ss of exon 2

----ggttatttagaaatgtatttagattattctgtattgaattgttttttctgtgggagctgctggtgttacttgtaatca-catttcaacttctctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCTGAGTTCATCAGCTACCCCATCTCCCTGTGGACTGAAAAGACAACAGAGA
      |    ||  |   | ||   || |||      || || ||||||| |||      || |  ||||  || |||| | |  ||  | || |  |||||||||||| ||||||||||| |||||||||||||||||||| |||||||| |||||||||||||||||||| |||||| | |||||||| |||||||| ||||
gcataatggcataacaccttgttccaataatta---gctgtatcgttttttttgttcttattgtt--tgttgtttataataaactgttgcaatttttacttgcagCTGGAATACCTTGAGGAACGTCGCCTCAAGGATCTGGTGAAGAAGCATTCTGAGTTCATCAGCTACCCTATCTCCTTATGGACTGAGAAGACAACCGAGA

upper sequence: GRMZM2G112165_T01 (Zea mays), 3'ss of exon 2
lower sequence: EDP01972 (Chlamydomonas reinhardtii), 3'ss of exon 1

ggttatttagaaatgtatttagattattctg--tattgaattgttttttctgtgggagctgctggtgttacttg-taatcacatttcaacttctctcttg-------cagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCTGAGTTCATCAGCTACCCCATCTCCCTGTGGACTGAAAAGACAACAGAGA
 | |  || |  ||||   |   ||   |    ||  | |  |     ||      |   ||   ||   || |    |  |||||| ||   || |          |||  ||||||||| |||||||| ||| ||||||| |||||||||||||||   |||||||||  |||||||||||| |||||||| || ||||         
tgct-cttggccatgtgcctgtgttgccccagttaccgcaaagccgcctcctcaccatgggcccatgccgctcggcccttccatttccacccgtcccgcagGAGGACCAGAAGGAGTACCTGGAGGAGCGGCGCATCAAGGACCTGGTCAAGAAGCACAGCGAGTTCATCTCCTACCCCATCTCGCTGTGGACCGAGAAGA---------

upper sequence: GRMZM2G112165_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ22362 (Selaginella moellendorffii), 3'ss of exon 3

ggttatttagaaatgtatttagattattctgtattgaattgttttttctgtgggagctgctggtgttacttgtaatcacatttcaacttctctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCTGAGTTCATCAGCTACCCCATCTCCCTGTGGACTGAAAAGACAACAGAGA
                                      | |   ||||| |   | |     |||  ||  ||| | || | | |  ||   |    ||||| || |||||||| ||| |    |||||||||||  ||||||||||||| || || |||||||| ||||||||| | ||||  || ||||| || || |
-------------------------------------gtaggcgtttctatttcatcgat--gtgaaacaagtagttac-tctgattttggttggcacagCTTGAATACCTTGAAGAGAGGAAGCTCAAGGATCTCATCAAGAAGCACTCCGAATTTATCAGCTATCCCATCTCCGTCTGGATCGAGAAGACTACTGACA

upper sequence: GRMZM2G112165_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ25533 (Selaginella moellendorffii), 3'ss of exon 3

ggttatttagaaatgtatttagattattctgtattgaattgttttttctgtgggagctgctggtgttacttgtaatcacatttcaacttctctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCTGAGTTCATCAGCTACCCCATCTCCCTGTGGACTGAAAAGACAACAGAGA
                                      |     ||||| |   | |     |||  ||  ||| | || ||| |  ||   |    ||||| ||||||||||| ||| |    |||||||||||  ||||||||||||| ||||| |||||||| ||||||||| | ||||  || ||||| || || |
-------------------------------------gtatgcgtttctatttcatcgat--gtgaaacaagtacttac-tttgattttggttggcacagCTTGAGTACCTTGAAGAGAGGAAGCTCAAGGATCTCATCAAGAAGCACTCCGAGTTTATCAGCTATCCCATCTCCGTCTGGATCGAGAAGACTACTGACA

upper sequence: GRMZM2G112165_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ17594 (Selaginella moellendorffii), 3'ss of exon 3

ggttatttagaaatgtatttagattattctgtattgaattgttttttctgtgggagctgctggtgttacttgtaatcacatttcaacttctctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCTGAGTTCATCAGCTACCCCATCTCCCTGTGGACTGAAAAGACAACAGAGA
                             ||| ||    ||||||| ||||  |||   ||     | | ||| |  | | ||   | |  ||    ||||| || ||||| |||||| |  | |||||||||||| ||||||||||||| |||||||||||||| ||||||||| | |||  ||| ||||| || ||||
----------------------------gtgtgtttttgtgtttttgctgtttgag--acta----tccctgtgactaaactttttcata-ctgcgccagCTTGAATACCTCGAGGAGAGGAGGCTCAAGGATCTGATCAAGAAGCACTCCGAGTTCATCAGCTATCCCATCTCCGTCTGGGTTGAGAAGACGACCGAGA

upper sequence: GRMZM2G112165_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ29061 (Selaginella moellendorffii), 3'ss of exon 3

ggttatttagaaatgtatttagattattctgtattgaattgttttttctgtgggagctgctggtgttacttgtaatcacatttcaacttctctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCTGAGTTCATCAGCTACCCCATCTCCCTGTGGACTGAAAAGACAACAGAGA
                             ||| ||    ||||||| ||||  |||    |     | | ||| |  | | ||   | |  ||    ||||| || || || |||||| |  | |||||||||||| ||||||||||||| |||||||||||||| ||||||||| | |||  ||||||||| || ||||
----------------------------gtgtgtttttgtgtttttgctgtttgagacttta----tccctgtgactaaactttttcata-ctgcgccagCTTGAATATCTCGAGGAGAGGAGGCTCAAGGATCTGATCAAGAAGCACTCCGAGTTCATCAGCTATCCCATCTCCGTCTGGGTTGAAAAGACGACCGAGA

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments

ATGC    EST sequence
ATGC    genomic sequence (exon)
ATGC    genomic sequence (truncated intron)

EST: gi|211354373|gb|FL217087.1|FL217087

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAC                         CTGGAGTACCTTGAGGAGCGTCGCCTCAGGGATCTGGTCAAGAAGCACTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|211216581|gb|FL018387.1|FL018387

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGGTCCTTAAAGACGATCAG                         N
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcag-

EST: gi|211216581|gb|FL018387.1|FL018387

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGGTCCTTAAAGACGATCAG                         N
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcag-

EST: gi|211201152|gb|FL018301.1|FL018301

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGGTCCTTAAGGACGATCAG                         CCTG-AGTACCNTTGAGGAGCGTCGCCCTCAAG
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagC-TGGAGTACC-TTGAGGAGCGTCGCC-TCAAG

EST: gi|15632339|gb|BI679432.1|BI679432

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTG
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTG

EST: gi|45846711|gb|CN070654.1|CN070654

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTGC
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACT-C

EST: gi|211198605|gb|FL018290.1|FL018290

EST:     GCAGCTTGGCAGGGGCACTAAGATCACACTGGTCCTCA-GGNACGATCAG                         CTGGAGTACCTTTGAG-AGCGTCGCCT
genomic: GCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGG-ACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTT-GAGGAGCGTCGCCT

EST: gi|19769662|gb|BQ034383.1|BQ034383

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|20803096|gb|BQ294146.1|BQ294146

EST:     AGCAGCTAAACAGGGGCNNNNNNNTCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|211362793|gb|FL018427.1|FL018427

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTTGAG-AGCGTCGCCTCCAGGATCTGGTCA-GAAACACTC
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTT-GAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTC

EST: gi|211357475|gb|FL018404.1|FL018404

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCNTCAGGACGATCAG                         CTGGAGTACTTTGAGGAGCGTCGCCCTCNAGGATCTGGTCAAGAAGCACTC
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCC-TCAAGGATCTGGTCAAGAAGCACTC

EST: gi|211477620|gb|FL217092.1|FL217092

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGG
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGG

EST: gi|22549266|gb|BU101467.1|BU101467

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCTCTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|211360142|gb|FL018422.1|FL018422

EST:     GCAGCTTGGCAGGGGCACTAAGATCACACTGTTTCTTNAAG-ACGATCAG                         CTGGAGTACCTTGAGGAACGTCCCCTTCAAG-ATCTGGTCAAGAAGCACTC
genomic: GCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTT-AAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCT-CAAGGATCTGGTCAAGAAGCACTC

EST: gi|211216580|gb|FL018386.1|FL018386

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTTCTCANGGACGATCAG                         CTGGAGTACTTTGAAGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|211203717|gb|FL018311.1|FL018311

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTCAAGGACGATCAG                         CTGGAGTACCCTGAGGAGCGTCCCCTCAAGGATCTGGTCAAGAAGCACTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|211173616|gb|FL098016.1|FL098016

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTCAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|211368109|gb|FL018459.1|FL018459

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTCAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|211010808|gb|FL018233.1|FL018233

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTCAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCCTCA-GGATCTGGTCAAGAAGCACTC
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCC-TCAAGGATCTGGTCAAGAAGCACTC

EST: gi|211208867|gb|FL018340.1|FL018340

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGGTCCTTTAGGACGATCAG                         CTGGAGTACCCTGAGGAGCGTCGCCTCAAAGATCTGGTCA
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCA

EST: gi|32937391|gb|CF042210.1|CF042210

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACCCTGTTCCTCAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCCCTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|211477622|gb|FL217094.1|FL217094

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAG
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAG

EST: gi|211366455|gb|FL295062.1|FL295062

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCCTGAGGAGCGTCGCCTCAAGGATCTGGGTCA-GAAGCACTC
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGG-TCAAGAAGCACTC

EST: gi|21809822|gb|BQ668140.1|BQ668140

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTG
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTG

EST: gi|211370763|gb|FL018472.1|FL018472

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTCAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|32857992|gb|CD997673.1|CD997673

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTCAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|211010805|gb|FL018230.1|FL018230

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCCTCA-GGATCTGG
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCC-TCAAGGATCTGG

EST: gi|60336643|gb|DN203616.1|DN203616

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTCAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|211016367|gb|FL018259.1|FL018259

EST:     AGCAGCTTGGCAAGGGCACTAAGATCACACTGTTCCTCAAGGACGATCAG                         CTGAAGTACTTTGGAG-AGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTC
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTG-AGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTC

EST: gi|113837356|gb|DW959624.1|DW959624

EST:     CTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGNTCTGGTCAAGAAGCACTC
genomic: CTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTC

EST: gi|211206297|gb|FL018334.1|FL018334

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGC
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGC

EST: gi|211019159|gb|FL018279.1|FL018279

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|60341618|gb|DN208591.1|DN208591

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|211211435|gb|FL018356.1|FL018356

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTCAAGGACGATCAG                         CTGGAGTACTTTGAGGAGCGTCGCCCTCA-GGATCTGGGTCA-GAAGCACT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCC-TCAAGGATCTGG-TCAAGAAGCACT

EST: gi|211376086|gb|FL018501.1|FL018501

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTCAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCCTCA-GGATCTGGGTCA-GAAGCACT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCC-TCAAGGATCTGG-TCAAGAAGCACT

EST: gi|47962765|gb|CN845474.1|CN845474

EST:     AGCAGCTTGNCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CAGGAGTACCTTGAGGAGCGTCGTCTCAAGGATCTGGTCAAGAAGCACTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|211360133|gb|FL018413.1|FL018413

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCCTCA-GGATCTGGTNCA-GAAGCACT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCC-TCAAGGATCTGGT-CAAGAAGCACT

EST: gi|38502518|gb|CF972378.1|CF972378

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CAGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|211203725|gb|FL018319.1|FL018319

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGGT-CCTTGGAGGAGCGTCGCCCTCA-GGATCTGGGTCAAGAAAGC
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAG-TACCTTG-AGGAGCGTCGCC-TCAAGGATCTGG-TCAAGAA-GC

EST: gi|211368114|gb|FL018464.1|FL018464

EST:     AACAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|211203727|gb|FL018321.1|FL018321

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCCTCAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCCTCA-GGATCTGGTCAAGAGGCACT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCC-TCAAGGATCTGGTCAAGAAGCACT

EST: gi|211019150|gb|FL018270.1|FL018270

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTTCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGAATCTGGTCAAGAAGCACTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|31363594|gb|CD447951.1|CD447951

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|211198600|gb|FL018285.1|FL018285

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACTTTGAGGAGCGTCGCCTCAAGGATCTGGGTCA-GAAGCACTC
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGG-TCAAGAAGCACTC

EST: gi|211019151|gb|FL018271.1|FL018271

EST:     GCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCCTTAAG-ACGATCAG                         CTGGAGTACCTTGAAGAGCGTCGCCCTCA-GGATCTGGTCAAAAAGCACTC
genomic: GCAGCTTGGCAGGGGCACTAAGATCACACTGTTCC-TTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCC-TCAAGGATCTGGTCAAGAAGCACTC

EST: gi|20803097|gb|BQ294147.1|BQ294147

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGC
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGC

EST: gi|211480497|gb|FL217106.1|FL217106

EST:     AGCAGCTTGGCAGGGGCACTAANATCACACTGNTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGG
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGG

EST: gi|211010810|gb|FL018235.1|FL018235

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTCAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTNCA-GAAGCACTC
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGT-CAAGAAGCACTC

EST: gi|211360144|gb|FL018424.1|FL018424

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|14701224|gb|BI233642.1|BI233642

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|211370765|gb|FL018474.1|FL018474

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCCTCAGGACGATTAG                         CTGGAGTACCTTGAGGAGCGTCGCC
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCC

EST: gi|211477625|gb|FL217097.1|FL217097

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTG
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTG

EST: gi|211016362|gb|FL018254.1|FL018254

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTCAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|211198598|gb|FL018283.1|FL018283

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTCAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATTTGGTCAAGAAGCACTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|211211434|gb|FL018355.1|FL018355

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTCAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTC-CCNTCAAGGATCTGGTCAAGAAGCACTC
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCC-TCAAGGATCTGGTCAAGAAGCACTC

EST: gi|211354370|gb|FL217084.1|FL217084

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCT

EST: gi|211376084|gb|FL018499.1|FL018499

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTCAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTC
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTC

EST: gi|211206300|gb|FL018337.1|FL018337

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACT

EST: gi|211354368|gb|FL217082.1|FL217082

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAG
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAG

EST: gi|22520780|gb|BU079591.1|BU079591

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTC
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTC

EST: gi|32937909|gb|CF042728.1|CF042728

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTCAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|31353603|gb|CD437960.1|CD437960

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|211354375|gb|FL217089.1|FL217089

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCA
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCA

EST: gi|211477630|gb|FL217102.1|FL217102

EST:     GCAGCTTGGCAGGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTC
genomic: GCAGCTTGGCAGGGG-CACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTC

EST: gi|211354372|gb|FL217086.1|FL217086

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTC
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTC

EST: gi|45847283|gb|CN071226.1|CN071226

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|211357469|gb|FL018398.1|FL018398

EST:     CAGCTTGGCCAGGGG-ACTAAAATCACA-TGTTTCCTCAAGGACGAACAG                         CTGGAGTACCTTGAGGAGCGTCGCCCTCAGGGATC
genomic: CAGCTTGGC-AGGGGCACTAAGATCACACTGTT-CCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCC-TCAAGGATC

EST: gi|113785183|gb|DW909059.1|DW909059

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCG
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCG

EST: gi|211211432|gb|FL018353.1|FL018353

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGGTCCTCAAGGACGATCAG                         CTGGAGTACCTTGAAGAGCGTCGCCTCA-GGATCTGGTCCAGAAGCACTCT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

EST: gi|120480871|gb|EH211070.1|EH211070

EST:     AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAG                         CTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATTTGGTCAAGAAGCACTTT
genomic: AGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCT

RNA-Seq data

ATGC Supported by RNA-Seq exonic block that spans over the splice site

atgs Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.

Found data for 4 RNA-Seq libraries.

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 6970

GGAGTCCCAAGCGGGCGGGTCGTTCACTGTTACTCGTGACACGTCAGGGGAGCAGCTTGGCAGGGGCACTAAGATCACACTGTTCCTTAAGGACGATCAGgtatgctgca ... tctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCTGAGTTCATCAGCTACCCCATCTCCCTGTGGACTGAAAAGACAACAGAGA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 2403

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1647

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 3496

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

ttctgtgggagctgctggtgttacttgtaatcacatttcaacttctctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCTGAGTTCATCAGCTACCCCATCTCCCTGTGGACTGAAAAGACAACAGAGA

                                   tttcaacttctctctt  CT-rich tract
                        ttgtaat  TA-rich tract

Putative cis-regulatory sequences

atgc	intron	ATGC	exonic elements by Pertea et al.
ATGC	exon	atgc	putative intronic elements
		ATGC	putative exonic elements identified for retained introns

        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggttatttagaaatgtatttagattattctgtattgaattgttttttctgtgggagctgctggtgttacttgtaatcacatttcaacttctctcttgcagCTGGAGTACCTTGAGGAGCGTCGCCTCAAGGATCTGGTCAAGAAGCACTCTGAGTTCATCAGCTACCCCATCTCCCTGTGGACTGAAAAGACAACAGAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - -tgtattt
- - - - - - - - - - - - - - - - - tgaattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -gctgctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatcaca