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

gtaagcgttttttttttaattttgtgaactgagcaataacttggttggtagacttcccactgaggaggccacccctgagaattagtttcagggagttccctggccagctagggttttgggtactccacttttttaatacaaagccatgaaatgtcatctccaactctctcatgtagcttttgttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTATGCATTAGGCTATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGA

Basic information

species	Zea mays
transcript	GRMZM2G143862_T01
intron #	4
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G143862_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os06g13810.1 (Oryza sativa), 3'ss of exon 11

gtaagcgttttttttttaattttgtgaactgagcaataacttggttggtagacttcccactgaggaggccacccctgagaattagtttcagggagttccctggccagctagggttttgggtactccacttttttaatacaaagccatgaaatgtcatctccaactctctcatgtagcttttgttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTATGCATTAGGCTATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGA
                                                                                                                    |  ||| |  | | ||  | |    |   |   |||  |||||| ||  || |         | |  | |||||| || ||||||||||| ||||||||||||| |||||||||||||||||||||||| |||||||| ||| |||| || ||||||||| ||||||||||||||
-------------------------------------------------------------------------------------------------------------------gtatgta-tgaattgttgcattttccaaaaaaataattccatctctaatgctgttgc----tgtgtaattttgcagATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTATGCGTTAGGCTACGGTTCTGGGGCACTTCTCCAATGTGGGAAGACAGGA

upper sequence: GRMZM2G143862_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA17G01360.1 (Glycine max), 3'ss of exon 9

gtaagcgttttttttttaattttgtgaactgagcaataacttggttggtagacttcccactgaggaggccacccctgagaattagtttcagggagttccctggccagctagggttttgggtactccacttttttaatacaaagccatgaaatgtcatctccaactctctcatgtagcttttgttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTATGCATTAGGCTATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGA
                                                                           |||   |||   |   ||| |         |  | |     |     |  || | | ||     | ||        |||  || | ||   |||  |  |   |        |||| || ||||| ||||| ||| | || || |||||||||||||  || ||||||||||| || ||||||||||  ||||| || |||||||||||||| |||
--------------------------------------------------------------------------ttgaagtttaacct---ggattaaaaaaaatattttgaccactaatggcatcattatctttgcttacagtt------tgtagtcactaataatcttttaaaatat--------gcagCTATGAAGGGAGATGTGGCTTGCCAACGAATTTTGATTCTACTTACTGCTATGCATTGGGTTATGGTGCTGCAGCCCTCCTTCAAAGTGGGAAGACTGGA

upper sequence: GRMZM2G143862_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA09G01050.1 (Glycine max), 3'ss of exon 11

gtaagcgttttttttttaattttgtgaactgagcaataacttggttggtagacttcccactgag--gaggccacccctgagaattagtttcagggagttccctggccagctagggttttgggtactc-cacttttttaatacaaagcc----atgaaatgtcatctccaactctctcatg--tagct--tttgttat-tgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTATGCATTAGGCTATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGA
|||     | |  |||| || || | |  |||  | ||| ||   |  || |  |  |  |||    |    ||     ||    | |||                    ||  ||||       ||  || | ||   |   |        ||||  |   || |   | | | |  |   |  ||  |||   || ||||| || ||||| ||||| ||| | ||||||||||||||| |||  |||||||||||  | || ||||||||||| ||||| || || ||||||||||| |||
gtattttatctaattttgatattatta-ttgaatagtaaatt--ctaatacatattgctgtgaatcaaaaaaactttccagggacaatttttattctcctttacttggattaaagtttctctcgatcatacatgttatgtgtgatctttcaaatgagtttatatgttagagtttgtagttactgactcatttaaaatatgcagTTATGAAGGGAGATGTGGCTTGCCTACTAATTTTGATGCTACTTATTGCTATGCTCTGGGTTATGGTGCTGGAGCCCTCCTTCATAGTGGGAAGACTGGA

upper sequence: GRMZM2G143862_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA15G11890.1 (Glycine max), 3'ss of exon 11

gtaagcgttttttttttaattttgtgaactgagcaataacttggttggtagacttccc--actgaggaggccacccctgagaattagtttcagggagttccctggccag--ctagggttttgggtactccacttttttaatacaaagcc----atgaaatgtcatctccaactctctcatgtagcttttgttat-tgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTATGCATTAGGCTATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGA
||||    | |  |||| || || | |  |||  | ||| ||       | | | |    | | |  |   |   || | ||  |  |||       | |  |     |   ||   || |    |    || | ||   |   |        ||||  |   || |   | | | |  ||   | |||   || ||||| || ||||| || || ||| | ||||||||||||||| |||  |||||||||||  | || ||||||||||| ||||| || || ||||||||||| |||
gtaatttatctaattttgatattatta-ttgaatagtaaattctaaaacatattgctgtgaatcaaaaaatctttccagggacatgctttttcttc-tcctttacttggatttaaatttctctcaatcatacatgttatgtgtgatcttttaaatgacttaatatgttagagtttgtactgactcatttaaaatatgcagTTATGAAGGGAGGTGTGGCTTGCCTACTAATTTTGATGCTACTTATTGCTATGCTCTGGGTTATGGTGCTGGAGCCCTCCTTCATAGTGGGAAGACTGGA

upper sequence: GRMZM2G143862_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA07G39380.2 (Glycine max), 3'ss of exon 11

gtaagcgttttttttttaattttgtgaactgagcaataacttggttggtagacttcccactgaggaggccacccctgagaattagtttcagggagttccctggccagctagggttttgggtactccacttttttaatacaaagccatgaaatgtcatctccaactctctcatgtag-cttttgttat-tgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTATGCATTAGGCTATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGA
                                                                                            |  |  |||||      |   |||||   | | || ||  | |   ||   | ||     || |          || | ||||  |||||   || ||||| || ||||| ||||| ||| | || ||||||||||||||||  || ||||||||||| || ||||||||||  ||||| || |||||||||||||| |||
--------------------------------------------------------------------------------------------gtttaacctggattaaaattcttttgacca-tacatttgctaatggcatctctatctttggttagaatttgtagtcacctgtactcttttaaaatatgcagCTATGAAGGGAGATGTGGCTTGCCAACTAATTTTGATTCTACTTACTGCTATGCATTGGGTTATGGTGCTGCAGCCCTCCTTCAAAGTGGGAAGACTGGA

upper sequence: GRMZM2G143862_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv12s0059g01220.t01 (Vitis vinifera), 3'ss of exon 11

gtaagcgttttttttttaattttgtgaactgagcaataacttggttggtagacttcccactgaggaggccacccctgagaattagtttcagggagttccctggccagctagggttttgggtactccacttttttaatacaaagcc-atgaaatgtcatct----ccaactctctcatgtagctt--ttgttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTATGCATTAGGCTATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGA
                                                                                    ||  | |  |  |   |||  |  |   ||||    || |  |       || | |  ||  |||  |  |   ||      |  | |  ||||   |||  || ||| | |||||| || || ||||| ||  | || || ||||||||| ||||||| ||||||||||| || ||||||||||| || || || ||   ||| ||||| |||
------------------------------------------------------------------------------------gtaaccgacatattggtggagaattgatgtttattataatttataagagaaacagagtgcttatgctacttttcctgggataagtttttacatgacacttaatttttacttcagGTATGAGGGCAGATGTGGTTTGCCAACAAATTTTGATGCTAACTACTGCTATGCATTGGGTTATGGTGCTGGAGCTCTCCTTCATTCTGGAAAGACTGGA

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|22521075|gb|BU079886.1|BU079886

EST:     GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|211507305|gb|FK969872.1|FK969872

EST:     GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|148933739|gb|EC877663.2|EC877663

EST:     GACAAGCTCATTTCTTTGG                         GTACGAAGGAAAGATGCGGCCCTTCCTACTAATTTTGATTCTAACTATTGC
genomic: GACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGG-AAGATGCGG-CCTTCCTACTAATTTTGATTCTAACTATTGC

EST: gi|213170617|gb|FM193174.1|FM193174

EST:     GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|67021131|gb|CO449880.1|CO449880

EST:     TGAGGGTGAGA-ACTCTGCACATTTCAGGA-GACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: TGAGGG-GAGATACTCTGCACATTTCA-GAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|32859024|gb|CD998705.1|CD998705

EST:     GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|148934427|gb|EC878461.2|EC878461

EST:     GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|149105031|gb|EE290510.2|EE290510

EST:     ATTTCAGAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: ATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|211286471|gb|FL080392.1|FL080392

EST:     TTTCAGAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: TTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|31359777|gb|CD444134.1|CD444134

EST:     GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|67023546|gb|CO452295.1|CO452295

EST:     CTGAGGGGAGATATC-CTGCACATTTCAGAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: CTGAGGGGAGATA-CTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|37398696|gb|CF636665.1|CF636665

EST:     GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|4886023|gb|AI677143.1|AI677143

EST:     CTCTGC-CATTTCAGAGG-CAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: CTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|22521074|gb|BU079885.1|BU079885

EST:     GACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: GACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|24767218|gb|CA402362.1|CA402362

EST:     GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|67015451|gb|CO444200.1|CO444200

EST:     GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|67024935|gb|CO453684.1|CO453684

EST:     GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|211286472|gb|FL080393.1|FL080393

EST:     ATTTCAGAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: ATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|211182047|gb|FL030523.1|FL030523

EST:     GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGSSTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|60343399|gb|DN210372.1|DN210372

EST:     GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|60394144|gb|DN227014.1|DN227014

EST:     GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|67012343|gb|CO441092.1|CO441092

EST:     GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|211507300|gb|FK969867.1|FK969867

EST:     GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|67021107|gb|CO449856.1|CO449856

EST:     GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|5108301|gb|AI740014.1|AI740014

EST:     GCTGAGGGGAGATACTCTGC-CATTTCAGAGGCCAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|149081933|gb|EE171094.2|EE171094

EST:     GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|87155550|gb|DY400339.1|DY400339

EST:     GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|3157350|gb|AA979972.1|AA979972

EST:     GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|26558921|gb|CA831156.1|CA831156

EST:     GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|211286477|gb|FL080398.1|FL080398

EST:     GCTGAGGGGAGATACTCTGCACATTTCASAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

EST: gi|211507306|gb|FK969873.1|FK969873

EST:     GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGG                         GTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTA

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), 47 (downstream exon)
Score: 263

CTGAGAAAATGCTTATTAGCATGGTGGAAACTGAACTGGAGAAGAGAAAAGCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttt ... gttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTATGCATTAGGCTATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 367

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 553

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 519

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

tacaaagccatgaaatgtcatctccaactctctcatgtagcttttgttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTATGCATTAGGCTATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGA

                                        cttttgtt  CT-rich tract
                                         ttttgttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcgttttttttttaattttgtgaactgagcaataacttggttggtagacttcccactgaggaggccacccctgagaattagtttcagggagttccctggccagctagggttttgggtactccacttttttaatacaaagccatgaaatgtcatctccaactctctcatgtagcttttgttattgcagGTACGAAGGAAGATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTATGCATTAGGCTATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA