Sequence
atgc intronic sequence ATGC exonic sequence...gagtgctagtcacggtttcggcttgaagttgcaatgattgttctttcccttctctttttcttcatatcctgccacttgatagaaactgtgaaactttcagGACAAACCTGCATTATTTAGATCTTTCTTCAAGTGGTTGAAGCCTGGAGGAAAAGTTCTAATTAGTGATTACTGCAAAAGATCAGGACCTCCATCACCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g05220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g50030.1 (Oryza sativa), 3'ss of exon 8
gagtgctagtcacggtttcggcttgaagttgcaatgattgttctttcccttctctttttcttcatatcctgccacttgatagaaactgt----gaaactttcagGACAAACCTGCATTATTTAGATCTTTCTTCAAGTGGTTGAAGCCTGGAGGAAAAGTTCTAATTAGTGATTACTGCAAAAGATCAGGACCTCCATCACCTG
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----tcttggaactatttgaattacctgccactaaatatgttttaccctttctttgatgccagaacaactgtgttttgaccagtgctgtttttgctctttgcagGATAAACCCTCACTATTTAAAAGTTTCTTCAAGTGGCTCAAACCTGGGGGTAAGGTCCTAATTAGTGATTACTGCAAGTGCCCTGGGAAACCTTCAGAAG
upper sequence: Vv01s0011g05220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os05g47540.4 (Oryza sativa), 3'ss of exon 6
----------------------------------------------------------------------gagtgctagtcacggtttcggcttgaagttgcaatgattgtt----ctttcccttctctttttcttcatatcctgccacttgatagaaactgtgaaa---ctttcagGACAAACCTGCATTATTTAGATCTTTCTTCAAGTGGTTGAAGCCTGGAGGAAAAGTTCTAATTAGTGATTACTGCAAAAGATCAGGACCTCCATCACCTG
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gtatgtttcacttcagagaatttacagatgtttctacaagtatcctacttaacacaattatactacgaacagctgttcgccagcatagctgatcacgggatacttacctattacaactttgtagttgagttaaccacagaagcaacagtcttacgattgctatacatggttttacagGATAAACCTGCTTTGTTCAGAAGTTTCTTCAAGTGGCTGAAACCTGGGGGCAAAGTCCTCATCAGTGATTACTGTAGGAATCCTGGGAAACCATCAGAAG
upper sequence: Vv01s0011g05220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G122296_T01 (Zea mays), 3'ss of exon 8
----------------------------------------------------------------------gagtgctagtcacggtttcggcttgaagttgcaatgattgt--tctttcccttctctttttcttcatatcctgcc-acttgatagaaactgtgaaacttt-------cagGACAAACCTGCATTATTTAGATCTTTCTTCAAGTGGTTGAAGCCTGGAGGAAAAGTTCTAATTAGTGATTACTGCAAAAGATCAGGACCTCCATCACCTG
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gtatgctttatacatataatgcatgtagtccttttcttccaagatgatagagctacatcttgatcatatagaatcatggaaactatcttcagttatagatgtacttattagaaacttgtttatgtcatacctttagttgactgtttaactaacatgccttttctggttttgactctgcagGATAAACCCTCCTTGTTTAAAAGTTTCTTCAAATGGCTGAAACCCGGGGGAAAGGTTCTAATCAGTGATTACTGCAAGAGTCCTGGAAAACCATCAGAAG
upper sequence: Vv01s0011g05220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G33790.2 (Glycine max), 3'ss of exon 7
gagtgctagtcacggtttcggcttgaagttgcaatgattgttctttcccttctctttttcttcatatcctgccacttgatagaaactgtga------aactttcagGACAAACCTGCATTATTTAGATCTTTCTTCAAGTGGTTGAAGCCTGGAGGAAAAGTTCTAATTAGTGATTACTGCAAAAGATCAGGACCTCCATCACCTG
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------ctgaaagtatataggttagttatttgaagtaccatgaaatacattatattaaatgcgacatgctgaggagaaatcaacattactatggatcaatacacagGATAAACCAACATTATTCAGATCATTTTACAAGTGGTTGAAGCCTGGAGGAAAAATTCTAATCACAGATTACTGCAAAAGTGCTGGAAGTCCATCTTTAG
upper sequence: Vv01s0011g05220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G05330.1 (Glycine max), 3'ss of exon 7
--------------------gagtgctagtcacggtttc--ggcttgaagttgcaatgattgttctttcccttctctttttcttcatatcctgccacttgatagaa---actgtgaaact-ttcagGACAAACCTGCATTATTTAGATCTTTCTTCAAGTGGTTGAAGCCTGGAGGAAAAGTTCTAAT-TAGTGATTACTGCAAAAGATCAGGACCTCCATCACCTG
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gtattgataggatagtaggtgtatgccactgaaagtatataagttagttatttaaagtaccatgaaatgcattatattaaatgtgatatgctgatgagaaaccaacattactatggatcaatacaggataaaccaacattatttagATCATTTTACAAGTGGTTGAAGCCTGGAGGAAAAATTCTAAAGTACAGATTACTGCAAAA--------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcccttctctttttcttcatatcctgccacttgatagaaactgtgaaactttcagGACAAACCTGCATTATTTAGATCTTTCTTCAAGTGGTTGAAGCCTGGAGGAAAAGTTCTAATTAGTGATTACTGCAAAAGATCAGGACCTCCATCACCTG
acttgat putative branch site (score: 5)
ctttc putative PPT
tttttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gagtgctagtcacggtttcggcttgaagttgcaatgattgttctttcccttctctttttcttcatatcctgccacttgatagaaactgtgaaactttcagGACAAACCTGCATTATTTAGATCTTTCTTCAAGTGGTTGAAGCCTGGAGGAAAAGTTCTAATTAGTGATTACTGCAAAAGATCAGGACCTCCATCACCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- gtgctag
- - - - - - - - - - - - - - - gcaatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atagaaa