Sequence
atgc intronic sequence ATGC exonic sequencegttggcattgccttaaagtttttaatatatttaatgatattcttttaggtcatatatcttctattcttttgttaaatattttgttctttggtctttcacatctctaagaatttctattctttctcaatgtcactgacacaacattggcccttgtacacattacagATATGAAAGGCAAAATCAGAGTTTTCTGTCGGTTAAGGCCTCTTAGCGAAAAAGAGGTTGTTGAGAAAGAAAGATGTGTTCTTAATACTTTTGATGAGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GRMZM2G070273_T01 (Zea mays), 3'ss of exon 16
gttggcattgccttaaagtttttaatatatttaatgatattcttttaggtcatatatcttctattcttttgttaaatattttgttctttggtctttcacatctctaagaatttctat--tctttctcaatgtcactgacacaacattggcccttgtacacattacagATATGAAAGGCAAAATCAGAGTTTTCTGTCGGTTAAGGCCTCTTAGCGAAAAAGAGGTTGTTGAGAAAGAAAGATGTGTTCTTAATACTTTTGATGAGTT
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---------------------------------------------------------------------------gtaaaccagaatttaatgttt---gtgcttagtaatggctatgatgttttgtgatgaattgaccatgacttagttcca---actctttacagATATGAAAGGAAAAATAAGAGTTTTTTGTCGCTTGCGCCCTCTAAGCGACAAGGAACTTTCTTTTGAGGAGAAAAATATAGTTTGCAGTCCTGATGAATT
upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GRMZM2G423861_T02 (Zea mays), 3'ss of exon 16
gttggcattgccttaaagtttttaatatatttaatgatattcttttaggtcatatatcttctattcttttgttaaatattttgttctttggtctttcacatctctaagaatttctattctttctcaatgtcactgacacaacattggcccttgtacacattacagATATGAAAGGCAAAATCAGAGTTTTCTGTCGGTTAAGGCCTCTTAGCGAAAAAGAGGTTGTTGAGAAAGAAAGATGTGTTCTTAATACTTTTGATGAGTT
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----------------------------------------------------------------------gtaaaccagaataaatgtttgtgcttag------taatggctatgatattttctga-------tgaaccatgatttattttccaactctttacagATATGAAAGGAAAAATAAGAGTTTTTTGTCGCTTGCGCCCTCTAAGCGACAAGGAACTTTCTTTTGAGGAGAAAAATATAGTTTGCAGTCCTGATGAATT
upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA16G21340.1 (Glycine max), 3'ss of exon 21
gttggcattgccttaaagtttttaatatatttaatgatattcttttaggtcatatatcttctattcttttgttaaatattttgttctttggtctttcacatctctaagaatttc--tattctttctcaatg-tcactgacacaacattggcccttgtacacattacagATATGAAAGGCAAAATCAGAGTTTTCTGTCGGTTAAGGCCTCTTAGCGAAAAAGAGGTTGTTGAGAAAGAAAGATGTGTTCTTAATACTTTTGATGAGTT
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---------------------------------------------------------------gtggatgatcaaaactctttatttttggaatccagtctatgtgaatgtgttgacatcatatataactggtcacatattcaaccttggaacttgtttttctttcagACATGAAGGGCAAGATCAGAGTTTACTGTCGACTAAGACCTCTTAGTGAAAAAGAGATTGTTGAGAAAGAAAGAGAAGTTCTTACTGCAGTTGATGAATT
upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA09G32740.1 (Glycine max), 3'ss of exon 18
gttggcattgccttaaagtttttaatatatttaatgatattcttttaggtcatatatcttctattcttttgttaaatattttgttctttggtctttcacatctctaagaatttctattctttctcaatgtcactgacacaacattggcccttgtacacattacagATATGAAAGGCAAAATCAGAGTTTTCTGTCGGTTAAGGCCTCTTAGCGAAAAAGAGGTTGTTGAGAAAGAAAGATGTGTTCTTAATACTTTTGATGAGTT
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---------------------------------------------------gtgggtgattgaaactctt--taa---ttttggaatcaagtctatga-gtatgtgttgacatacatacataactgat--cacatattcaaccttggaacttggttttctttcagACATGAAGGGCAAGATCAGAGTTTACTGTCGACTAAGACCTCTTAGTGAAAAAGAGATTGCTGAGAAAGAAAGAGAAGTTCTTACTGCCACTGATGAGTT
upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA01G35950.1 (Glycine max), 3'ss of exon 18
gttggcattgccttaaagtttttaatatatttaatgatattcttttaggtcatatatcttctattcttttgttaaatattttgttctttggtctttcacatctctaagaatttctattctttctcaatgtcactgacacaacattggcccttg--tacacattacagATATGAAAGGCAAAATCAGAGTTTTCTGTCGGTTAAGGCCTCTTAGCGAAAAAGAGGTTGTTGAGAAAGAAAGATGTGTTCTTAATACTTTTGATGAGTT
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------------------------------------------------gtggtggatagaatatatttatacaagaaatattatgtatttgt-----gaatgtgtag--atttacata---tataactgacataataactacattggattatggttcttaatttcagATATGAAAGGCAAGATAAGAGTTTATTGTCGGTTAAGACCTCTTAGTGAAAAAGAGATTGCAAGCAAAGAAAGAGATTCTCTTACTACTACTGATGAGTT
upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA11G09480.1 (Glycine max), 3'ss of exon 18
gttggcattgccttaaagtttttaatatatttaatgatattcttttaggtcatatatcttctattcttttgttaaatattttgttctttggtctttcacatctctaagaatttctattctttctcaatgtcactgacacaaca------ttggcccttg--tacacattacagATATGAAAGGCAAAATCAGAGTTTTCTGTCGGTTAAGGCCTCTTAGCGAAAAAGAGGTTGTTGAGAAAGAAAGATGTGTTCTTAATACTTTTGATGAGTT
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---------------------------------------------------------------gtggtggacagaatttatttataccagaaatattatgtatctgtgaatttgtagatttacata-tataactgacataataactacgttggattatgattctttatttcagATATGAAAGGCAAGATAAGAGTTTATTGTCGGTTAAGACCTCTTAGTGAAAAAGAGATTGCAAGCAAAGAAAGAGATTCTCTTACTACTGTAGATGAGTTMapped 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|351015272|gb|FQ445556.1|FQ445556EST: TTACAAGGACGAACAAGTTCTAAGGAAGCGATATTTTAACATAATAGAAG ATATGAAAGGCAAAATCAGAGTTTTCTGTCGGTTAAGGCCTCTTAGCGAAA
genomic: TTACAAGGACGAACAAGTTCTAAGGAAGCGATATTTTAACATAATAGAAGgttggcattg ... cacattacagATATGAAAGGCAAAATCAGAGTTTTCTGTCGGTTAAGGCCTCTTAGCGAAA
EST:
gi|351043062|gb|FQ443904.1|FQ443904EST: TTACAAGGACGAACAAGTTCTAAGGAAGCGATATTTTAACATAATAGAAG ATATGAAAGGCAAAATCAGAGTTTTCTGTCGGTTAAGGCCTCTTAGCGAAA
genomic: TTACAAGGACGAACAAGTTCTAAGGAAGCGATATTTTAACATAATAGAAGgttggcattg ... cacattacagATATGAAAGGCAAAATCAGAGTTTTCTGTCGGTTAAGGCCTCTTAGCGAAA
EST:
gi|351026499|gb|FQ428511.1|FQ428511EST: TTACAAGGACGAACAAGTTCTAAGGAAGCGATATTTTAACATAATAGAAG ATATGAAAGGCAAAATCAGAGTTTTCTGTCGGTTAAGGCCTCTTAGCGAAA
genomic: TTACAAGGACGAACAAGTTCTAAGGAAGCGATATTTTAACATAATAGAAGgttggcattg ... cacattacagATATGAAAGGCAAAATCAGAGTTTTCTGTCGGTTAAGGCCTCTTAGCGAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttctattctttctcaatgtcactgacacaacattggcccttgtacacattacagATATGAAAGGCAAAATCAGAGTTTTCTGTCGGTTAAGGCCTCTTAGCGAAAAAGAGGTTGTTGAGAAAGAAAGATGTGTTCTTAATACTTTTGATGAGTT
cactgac putative branch site (score: 2)
attcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggcattgccttaaagtttttaatatatttaatgatattcttttaggtcatatatcttctattcttttgttaaatattttgttctttggtctttcacatctctaagaatttctattctttctcaatgtcactgacacaacattggcccttgtacacattacagATATGAAAGGCAAAATCAGAGTTTTCTGTCGGTTAAGGCCTCTTAGCGAAAAAGAGGTTGTTGAGAAAGAAAGATGTGTTCTTAATACTTTTGATGAGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG