Sequence
atgc intronic sequence ATGC exonic sequence...gaatacatgtgatatttatttgattctatccttgattttcagccttctgagatgcctcctgcttaaaaattattttctaacacttaatgctgaattgcagGTTGCAAAAGAAGCTTCAGATATGGTTCTGGCAGATGACAATTTCAGTACCATAGTTTCAGCCGTTGCAGAGGGTCGCTCAATTTATAACAACATGAAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G02490.1 (Glycine max), 3'ss of exon 6
-gaatacatgtgatatttatttgattctatccttgattt--tcagccttctgagatgcctcctgcttaaaaattattttctaacacttaatgctgaattgcagGTTGCAAAAGAAGCTTCAGATATGGTTCTGGCAGATGACAATTTCAGTACCATAGTTTCAGCCGTTGCAGAGGGTCGCTCAATTTATAACAACATGAAGG
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tatattgactaaaaataaattgagacctgatatgggtctacttggacttcttag---cattctgattggaagttcaataaccttgtctactaaaacacaacagGTTGCAAAAGAAGCTTCAGATATGGTGCTTGCAGATGACAATTTTAGTACCATAGTTTCAGCTGTTGCTGAGGGTCGCTCTATTTATAATAACATGAAGT
upper sequence: Vv15s0046g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G05890.1 (Glycine max), 3'ss of exon 4
--gaatacatgtgatatttatttgattctatccttgatt-ttcagccttctgagatgcctcctgcttaaaaattattttctaacacttaatgctgaattgcagGTTGCAAAAGAAGCTTCAGATATGGTTCTGGCAGATGACAATTTCAGTACCATAGTTTCAGCCGTTGCAGAGGGTCGCTCAATTTATAACAACATGAAGG
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atagaaacatcagcataaagtgagacttgatatgtgtctacttggacttgttaa---cattctgattaaaagttcaataaccttgtctactaaaacacaacagGTTGCAAAAGAAGCTTCAGATATGGTGCTAGCAGATGACAATTTTAGTACCATAGTTTTAGCTGTTGCTGAGGGTCGCTCTATTTATAATAACATGAAAT
upper sequence: Vv15s0046g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S80_36V6.1 (Physcomitrella patens), 3'ss of exon 5
gaatacatgtgatatttatttgattctatccttgattttcagccttctgagatgcctcctgcttaaaaattattttctaacacttaatgctgaatt---gcagGTTGCAAAAGAAGCTTCAGATATGGTTCTGGCAGATGACAATTTCAGTACCATAGTTTCAGCCGTTGCAGAGGGTCGCTCAATTTATAACAACATGAAGG
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--gcaca-gtgatgatctttaacgttcaaataatgttctgtgaactcaaattctacttcaattagtacattgaaatttaaacttgtgagctgtacttgtgcagGTTGCCAAAGAAGCTGCTGACATGGTGCTGGCAGACGACAATTTCAGCACAATCGTGGCAGCTGTTGGAGAGGGTCGTGCAATTTACAACAACATGAAAG
upper sequence: Vv15s0046g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ35276 (Selaginella moellendorffii), 3'ss of exon 5
gaatacatgtgatatttatttgattctatccttgattttcagccttctgagatgcctcctgcttaaaaattattttctaacacttaatgctgaat-tgcagGTTGCAAAAGAAGCTTCAGATATGGTTCTGGCAGATGACAATTTCAGTACCATAGTTTCAGCCGTTGCAGAGGGTCGCTCAATTTATAACAACATGAAGG
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--------------------------------------------gtacaaaaaaatcattatcggaacgttctat----gtactgactgcaatccacacagGTAGCAAAAGAAGCTGCAGACATGGTGTTGGCAGACGATAACTTCAGCACGATTGTATCAGCCGTTGCAGAAGGTCGTTCAATCTACAACAACATGAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgagatgcctcctgcttaaaaattattttctaacacttaatgctgaattgcagGTTGCAAAAGAAGCTTCAGATATGGTTCTGGCAGATGACAATTTCAGTACCATAGTTTCAGCCGTTGCAGAGGGTCGCTCAATTTATAACAACATGAAGG
ttaaaaattattttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaatacatgtgatatttatttgattctatccttgattttcagccttctgagatgcctcctgcttaaaaattattttctaacacttaatgctgaattgcagGTTGCAAAAGAAGCTTCAGATATGGTTCTGGCAGATGACAATTTCAGTACCATAGTTTCAGCCGTTGCAGAGGGTCGCTCAATTTATAACAACATGAAGG
- - -catgtga
- - - - - - - - - - - - tctatcc
- - - - - - - - - - - - - - - - - - - - agccttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaatta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctaacac