Sequence
atgc intronic sequence ATGC exonic sequence...ccacattcccatgcactactcaatttctctctctctctcttgctgcattttgtatgtataaggttttagaagattaatctacttttgttttacttctcagAATGCCGTTTCTCAGAAGGGGAATGAAGTGAACTTAACTCTTGGCGGTATTGATCTCAACAATTCAGGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G019153_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA06G09860.1 (Glycine max), 3'ss of exon 5
----ccacattcccatgcactactcaatttctctctctctctcttgctgcattttgtatgtataaggttttagaagattaatctacttttgttttacttctcagAATGCCGTTTCTCAGAAGGGGAATGAAGTGAACTTAACTCTTGGCGGTATTGATCTCAACAATTCAGGCAG
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caacacacacacacatgcaagtctaacatgtttacttggtttgtgtttggaaact---tgt-tatcatattcatatctttatcattgtgttttttgctttacagAATGCTGTCCCTCAGAAGGGAAATGAAGTGAATTTGACCCTTGGTGGCATTGACCTCAACAATTCAGGCAG
upper sequence: GRMZM2G019153_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA04G09780.1 (Glycine max), 3'ss of exon 2
--ccacattcccatgcactactcaatttctctctctctctcttgctgcattttgtatgtataaggttttagaagattaatctacttttgttttacttctcagAATGCCGTTTCTCAGAAGGGGAATGAAGTGAACTTAACTCTTGGCGGTATTGATCTCAACAATTCAGGCAG
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aaacacacacacatgcaagtctaacatgtttacttggtttgtgtttggaaact-tgt-tatcatattcatatatctttatcattgtgttttttgctttacagAATGCTGTCTCTCAGAAGGGAAATGAAGTGAATTTGACCCTTGGTGGCATTGACCTCAACAATTCAGGCAG
upper sequence: GRMZM2G019153_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv18s0001g07310.t01 (Vitis vinifera), 3'ss of exon 3
ccacattcccatgcactactcaatttctctctctctctcttgc--tgcattttgtatgtataaggttttagaagatta-atctacttttgttttacttctcagAATGCCGTTTCTCAGAAGGGGAATGAAGTGAACTTAACTCTTGGCGGTATTGATCTCAACAATTCAGGCAG
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---ttttatttgatgatactctttttcaagctctatctttttccatgcttgttgcatttttaaggttttagaaggttacatatgctactatttctctttccagAGTGCTATTCCTCAAAAGGGTAGTGAGGTGAATTTGACCCTTGGTGGTATTGACCTCAACAATTCAGGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattttgtatgtataaggttttagaagattaatctacttttgttttacttctcagAATGCCGTTTCTCAGAAGGGGAATGAAGTGAACTTAACTCTTGGCGGTATTGATCTCAACAATTCAGGCAG
gattaat putative branch site (score: 3)
tctacttttgttttac CT-rich tract
ttttagaagattaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccacattcccatgcactactcaatttctctctctctctcttgctgcattttgtatgtataaggttttagaagattaatctacttttgttttacttctcagAATGCCGTTTCTCAGAAGGGGAATGAAGTGAACTTAACTCTTGGCGGTATTGATCTCAACAATTCAGGCAG
-cacattc
- - - - ccatgca
- - - - - - - - - - - - - - - - - - - -ttgctgc
- - - - - - - - - - - - - - - - - - - - - - - - - - tatgtat