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

gtacgcgagctcctcctaaacgtagcgctaccagcccttctcccccctgcgtcgatggatctgacctgtgctcttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGGGAGCTCGCGGAGGACGGCTACTCCGGCGTGGAGGTGCGCGTCACACCGA

Basic information

species	Zea mays
transcript	GRMZM2G074300_T04
intron #	1
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G074300_T04 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g38000.1 (Oryza sativa), 3'ss of exon 1

gtacgcgagctcctcctaaacgtagcgctaccagcccttctcccccctgcgtcgatggatctgacctgtgctcttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGGGAGCTCGCGGAGGACGGCTACTCCGGCGTGGAGGTGCGCGTCACACCGA
||||| | ||   |||    || || | |  |    |   ||    |        | |||||||   ||  |  |    ||||||||| ||||| |||||||||||||| ||||| || |||||||||||||||||||| || |||||||||||||||||||||||||||||||| || ||||
gtacg-gtgcagatccct--cgcagggtt-tcgattcgattcgattcgattctcctcgatctgatg-gtttttgttcatgtagTTCGTGAGCGATGGCGTGTTCTACGCGGAGCTGAACGAGATGCTGACGCGGGAGCTGGCCGAGGACGGCTACTCCGGCGTGGAGGTGCGCGTGACGCCGA

upper sequence: GRMZM2G074300_T04 (Zea mays), 3'ss of exon 1
lower sequence: EDP07493 (Chlamydomonas reinhardtii), 3'ss of exon 1

gtacgcgagctcctcctaaacgtagcg-ctaccagccct-----tctcccccctgcgtcgatggat-------ctgacctgtgctcttgtcc----------gtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGGGAGCTCGCGGAGGACGGCTACTCCGGCGTGGAGGTGCGCGTCACACCGA
||| || ||        | | || ||| ||   ||| |       |  |||| ||||  ||  | |          || | | || |||  |            ||||||||   ||||||||||||||||||||||| || ||| | ||||| || ||||| || ||||| ||||||||||| |||||||| ||||| || || |
gtaggccaggcttctgaatatgttgcggctgtgagcgcgggcggccggccccttgcgaggacaggtggctaagtctacgtattctattgctccatgtgccacacagTTCGTCCAGGACGGCGTGTTCTACGCCGAGCTGAACGAGCTCCTGACCCGCGAGCTGGCCGAGGATGGCTACTCCGGTGTGGAGGTCCGCGTGACCCCCA

upper sequence: GRMZM2G074300_T04 (Zea mays), 3'ss of exon 1
lower sequence: PP1S41_146V6.1 (Physcomitrella patens), 3'ss of exon 1

---------------------------------gtacgcga-gctcctcctaaacgtagcgctaccagcccttctcccccctgcgtcgatggatctgacctgtgctcttgtccgt-agTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGGGAGCTCGCGGAGGACGGCTACTCCGGCGTGGAGGTGCGCGTCACACCGA
                                 |  || |  | |   |   |   | || |  ||   | |       |   |   | || ||      |  |   |||||  | |||||||    ||||| || |||| |||||||||||| ||| | || || ||||| || || ||||| |||||||||||||| || |||||||| || || |
gtgaggctatctcgttttgtggaggttttccaggctcgtgttgatttgctctattctggcacggccttgcttctagaagctcacacagttgcattgtgggttggtctttgtctttcagTTCGTAGCTGACGGTGTTTTCTTCGCCGAGCTCAACGAGCTTCTCACCCGGGAACTTGCCGAGGATGGCTACTCCGGCGTTGAAGTGCGCGTGACCCCCA

upper sequence: GRMZM2G074300_T04 (Zea mays), 3'ss of exon 1
lower sequence: PP1S31_178V6.1 (Physcomitrella patens), 3'ss of exon 1

-----------------------------------------------------------gtacgcgagctcctcctaaacgtagcgct-accagcccttctcccccctgcgtcgatgga------tctgacctgtgctcttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGGGAGCTCGCGGAGGACGGCTACTCCGGCGTGGAGGTGCGCGTCACACCGA
                                                            |     |     |  |   |  |   || || ||  |   |  |   |   ||   | |      | ||   | |    ||   |  |||| ||    ||||| || |||| |||||||||||||||| | || || || |||||||| || || ||||| || || ||||| ||||||||||| || |
gtggaattcttcgcttgtgaacaagtttttgagactttggctgtttttttttttaaatgatttttaattgttttttttgctgaaaactcactagggcacatttcgagtagatcacagcactcatgtttgttttatctcttttctcacagTTTGTAGCAGACGGTGTTTTCTTCGCCGAGCTCAATGAGCTTCTCACCCGCGAGCTCGCCGAAGATGGCTATTCTGGAGTGGAAGTGCGCGTCACTCCCA

upper sequence: GRMZM2G074300_T04 (Zea mays), 3'ss of exon 1
lower sequence: PP1S29_222V6.1 (Physcomitrella patens), 3'ss of exon 1

-------------gtacgcgagctcctcc-taaacgtagcgctaccagcc--cttctcccccctgc--gtcgatggatctgacctgtgctcttgtccg--tagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGGGAGCTCGCGGAGGACGGCTACTCCGGCGTGGAGGTGCGCGTCACACCGA
              |   ||  ||  ||   |||  |     ||| | ||  |||    | | |||     | ||| |||  | |    | || |  |   |||||||    || || || ||||  || ||||| || ||| | || || ||||||||||| || || || ||||||||||| |||||||||||||| || |
gtgtgtgtaacccatcatcgctcttttctgcaaatctgataatactaccctgcttggttcacttgctcactgctggttctcccttccctttttctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGGGAGCTCGCCGAAGATGGGTACTCCGGCGTTGAGGTGCGCGTCACCCCCA

upper sequence: GRMZM2G074300_T04 (Zea mays), 3'ss of exon 1
lower sequence: PP1S127_74V6.1 (Physcomitrella patens), 3'ss of exon 1

----------------------------------------------gtacgcgagctcctcctaaacgta-gcgctaccagcccttctcccccctgcgtcgatggatctgacctgtgc----tcttgtccgt--agTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGGGAGCTCGCGGAGGACGGCTACTCCGGCGTGGAGGTGCGCGTCACACCGA
                                              |   | |||    |  ||    || |   |     ||  ||           |  |  | |||| | ||||     ||| |  ||   |||| ||    ||||| ||||| |  || |||||||||||| | || || || ||||| || ||||||||||| ||||| ||||||||||||||||| || |
gtttgtggttctaatttcaggcacttcgaaatttcgagatacttgaggttgtgagggttttttagtattacgttttgttgcccgatccttttgaaagttttacagctctgccgtgtgtctggtctcggtcgcgcagTTTGTAGCAGACGGTGTGTTTTTTGCTGAGCTCAATGAGCTTCTCACCCGAGAGCTTGCTGAGGACGGCTATTCCGGAGTGGAGGTGCGCGTCACGCCTA

upper sequence: GRMZM2G074300_T04 (Zea mays), 3'ss of exon 1
lower sequence: EFJ34676 (Selaginella moellendorffii), 3'ss of exon 1

gtacgcgagctcctcctaaacgtagcgctaccagcccttctcccccctgcgtcgatggatctgacctgtgctcttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGGGAGCTCGCGGAGGACGGCTACTCCGGCGTGGAGGTGCGCGTCACACCGA
                                        |    |  ||   |  |   |   |      |||       ||||||||  ||| || |||||||||||||||||||||||| | || ||||||||||| |||||||| || ||||| |||||||||||||| ||||||||||
---------------------------------------gtttgtcaagcaatgccgctccctcctctgattctctcttccagTTCGTCGCCGATGGAGTGTTCTACGCCGAGCTCAATGAGCTTCTCACGCGGGAGCTAGCGGAGGATGGATACTCGGGCGTGGAGGTGCGTGTCACACCGA

upper sequence: GRMZM2G074300_T04 (Zea mays), 3'ss of exon 1
lower sequence: EFJ34304 (Selaginella moellendorffii), 3'ss of exon 1

gtacgcgagctcctcctaaacgtagcgctaccagcccttctcccccctgcgtcgatggatctgacctgtgctcttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGGGAGCTCGCGGAGGACGGCTACTCCGGCGTGGAGGTGCGCGTCACACCGA
                     ||      | ||   |  ||||| ||| |  |      |||||  ||   ||||      ||||||||  ||| ||||||||||||||||||||||| ||| | || ||||||||| | || ||||| || ||||| |||||||||||||| ||||||||||
---------------------gtctgttcagcaatgccgctccctccttctcc------tctgatttg-attctt----ccagTTCGTCGCCGATGGCGTGTTCTACGCCGAGCTCAACGAGCTTCTCACGCGGGAGTTAGCAGAGGATGGATACTCGGGCGTGGAGGTGCGTGTCACACCGA

upper sequence: GRMZM2G074300_T04 (Zea mays), 3'ss of exon 1
lower sequence: EFJ31038 (Selaginella moellendorffii), 3'ss of exon 1

gtacgcgagctcctcctaaacgtagcgctaccagcccttctcccccctgcgtcgatggatctgacctgtgctcttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGGGAGCTCGCGGAGGACGGCTACTCCGGCGTGGAGGTGCGCGTCACACCGA
                     ||      | ||   |  ||| ||||| |       | |||||  ||   ||||      ||||||||  ||| ||||||||||||||||||||||| ||| | || ||||||||| | || ||||| || ||||| |||||||||||||| ||||||||||
---------------------gtttgttcagcaatgccgctctccccttc------tgctctgatttg-attctt----ccagTTCGTCGCCGATGGCGTGTTCTACGCCGAGCTCAACGAGCTTCTCACGCGGGAGTTAGCAGAGGATGGATACTCGGGCGTGGAGGTGCGTGTCACACCGA

upper sequence: GRMZM2G074300_T04 (Zea mays), 3'ss of exon 1
lower sequence: EFJ31296 (Selaginella moellendorffii), 3'ss of exon 1

gtacgcgagctcctcctaaacgtagcgctaccagcccttctcccccctgcgtcgatggatctgacctgtgctcttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGGGAGCTCGCGGAGGACGGCTACTCCGGCGTGGAGGTGCGCGTCACACCGA
                     ||      | ||   |  ||| |||||           |||   |||  ||||  |||  ||||||||  ||| || |||||||||||||||||||||||| | || ||||||||| | |||||||| || ||||| |||||||||||||| ||||||||||
---------------------gtttgttcagcaatgccgctctcccct-----------tctcctctgatctctcttcc--agTTCGTCGCCGATGGAGTGTTCTACGCCGAGCTCAATGAGCTTCTCACGCGGGAGTTAGCGGAGGATGGATACTCGGGCGTGGAGGTGCGTGTCACACCGA

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|211516716|gb|FL197113.1|FL197113

EST:     CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|211504917|gb|FL197047.1|FL197047

EST:     CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTATTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|18661874|gb|BM501626.1|BM501626

EST:     CCCATCTTCCTCCGTTAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCG-CAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|149078913|gb|EE167734.2|EE167734

EST:     CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|211512000|gb|FL197080.1|FL197080

EST:     CCCATCTTCCTCCGTTAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|9254179|gb|BE344647.1|BE344647

EST:     CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|211374869|gb|FL197001.1|FL197001

EST:     CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|9952937|gb|BE639520.1|BE639520

EST:     CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|211507278|gb|FL197062.1|FL197062

EST:     CCCATCTTCCTCCGTTAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|211504910|gb|FL197040.1|FL197040

EST:     CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|211098262|gb|FL316231.1|FL316231

EST:     CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGC-GAGGCTCAATGAGATGCTGACGCG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAG-CTCAATGAGATGCTGACGCG

EST: gi|211372204|gb|FL196985.1|FL196985

EST:     CCCATCTTCCTCCGTTAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|211012588|gb|FL327135.1|FL327135

EST:     CCCATCTTCCTCCGTTAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|148991020|gb|EE032461.2|EE032461

EST:     CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|211514358|gb|FL197097.1|FL197097

EST:     CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGC-GAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|211504914|gb|FL197044.1|FL197044

EST:     CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|148933725|gb|EC877641.2|EC877641

EST:     CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|211372197|gb|FL196978.1|FL196978

EST:     CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|211502560|gb|FL197032.1|FL197032

EST:     CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|94479335|gb|EB708293.1|EB708293

EST:     CCATCTTCCTCCGTCAACCATGGCGACCCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACCGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCG
genomic: CCATCTTCCTCCGTCAACCATGGCGACCC-AGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGAC-GGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCG

EST: gi|84351642|gb|DW246047.1|DW246047

EST:     CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|15053894|gb|BI359439.1|BI359439

EST:     CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|148956519|gb|EC902358.2|EC902358

EST:     CCCATCTTCCTCCGTCTACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGGGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|211507277|gb|FL197061.1|FL197061

EST:     CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|78111606|gb|DV530003.1|DV530003

EST:     CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|211372206|gb|FL196987.1|FL196987

EST:     CCCATCTTCCTCCGTTAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|211372195|gb|FL196976.1|FL196976

EST:     CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCS-AGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|211372200|gb|FL196981.1|FL196981

EST:     CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|9254139|gb|BE344607.1|BE344607

EST:     CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|211128259|gb|FL391803.1|FL391803

EST:     CCCATCTTCCTCCGTTAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|211377526|gb|FL197016.1|FL197016

EST:     CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|211374868|gb|FL197000.1|FL197000

EST:     CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

EST: gi|71318882|gb|DR796199.1|DR796199

EST:     CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAG                         TTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG
genomic: CCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGG

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: 454

CCAAAACCGTAGCGCCCTCGCCTGCTCGCCGCCGCCGTCGTTGCGAGCTCCCCATCTTCCTCCGTCAACCATGGCGACCCAGATCAGCAAGAAGAAGAAGgtacgcgagc ... ttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGGGAGCTCGCGGAGGACGGCTACTCCGGCGTGGAGGTGCGCGTCACACCGA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 176

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 144

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 154

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

taccagcccttctcccccctgcgtcgatggatctgacctgtgctcttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGGGAGCTCGCGGAGGACGGCTACTCCGGCGTGGAGGTGCGCGTCACACCGA

                              atctgac  putative branch site (score: 154)
                                          ctcttgtcc  putative PPT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgcgagctcctcctaaacgtagcgctaccagcccttctcccccctgcgtcgatggatctgacctgtgctcttgtccgtagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGGGAGCTCGCGGAGGACGGCTACTCCGGCGTGGAGGTGCGCGTCACACCGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG