Sequence
atgc intronic sequence ATGC exonic sequence...aaaaagctaaggcagcatatcaaattatcttttgtgaaatattgaattcatgctcttgctttcttttgcataagtctaatgtcattggttttatcttcagCTTTATACCAAAAACCTACATCTGGATGAAAAAGTCGATCTTCAGACTGTTGCTGCGTTCTGCAATGGCTATGTTGGAGCTGATTTAGAAGCATTGTGTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G149994_T05 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os04g42110.1 (Oryza sativa), 3'ss of exon 6
--------------------------------------------------aaaaagctaaggcagcatatcaaattat---cttttgtgaaatattgaattcatgctcttg----ctttcttttgcat-aagtctaatgtcattgg-----ttttatcttcagCTTTATACCAAAAACCTACATCTGGATGAAAAAGTCGATCTTCAGACTGTTGCTGCGTTCTGCAATGGCTATGTTGGAGCTGATTTAGAAGCATTGTGTC
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gtatcatataagaatgtagttttcccctcaaaaatagtaaaagaatgttgtattttatgatgtaacatagcaagccctgcattttttggatgtggttaacgtatgttcatgatgattttttcttatatgaagcttaatcttatagaccatattatgtttttagCTTTATACCAAGAATCTACATCTTGGTGAATGTGTTGATCTTCAATCTGTTGCTGCATCCTGCAATGGTTATGTTGGAGCTGATTTACAAGCTTTATGTC
upper sequence: GRMZM2G149994_T05 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os05g31220.1 (Oryza sativa), 3'ss of exon 2
--------------------------------------------------aaaaagctaaggcagcatatcaaattat---cttttgtgaaatattgaattcatgctcttg----ctttcttttgcat-aagtctaatgtcattgg-----ttttatcttcagCTTTATACCAAAAACCTACATCTGGATGAAAAAGTCGATCTTCAGACTGTTGCTGCGTTCTGCAATGGCTATGTTGGAGCTGATTTAGAAGCATTGTGTC
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gtatcatataagaatgtagttttcccctcaaaaatagtaaaagaatgttgtattttatgatgtaacatagcaagccctgcattttttggatgtggttaacttatgttcatgatgattttttcttatatgaagcttaatcttatagaccatattatgtttttagCTTTATACCAAGAATCTACATCTTGGTGAATGTGTTGATCTTCAATCTGTTGCTGCATCCTGCAATGGTTATCTTGGAGCTGATTTACAAGCTTTATGTC
upper sequence: GRMZM2G149994_T05 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA02G13160.1 (Glycine max), 3'ss of exon 7
aaaaagctaaggcagcatatcaaattatcttttgtgaaatattgaattcatgct--cttgctttcttttgcataagtctaat--gtcattggttttatctt----cagCTTTATACCAAAAACCTACATCTGGATGAAAAAGTCGATCTTCAGACTGTTGCTGCGTTCTGCAATGGCTATGTTGGAGCTGATTTAGAAGCATTGTGTC
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--------caatctttaagtctttttttctttcttgtttcatagaattcttgattgctgaagtttgacagcatggatttatgtggtttcttatattaacttattacagTTGTATACAAAGATGATTCCCTTGGATCCCGTTCTTGACTTAAAGTCTATTGCTGCATTGTGCAATGGATATGTTGGAGCTGATTTGGAGGCTTTGTGTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attcatgctcttgctttcttttgcataagtctaatgtcattggttttatcttcagCTTTATACCAAAAACCTACATCTGGATGAAAAAGTCGATCTTCAGACTGTTGCTGCGTTCTGCAATGGCTATGTTGGAGCTGATTTAGAAGCATTGTGTC
gtctaat putative branch site (score: 3)
ttttatcttc putative PPT
ttttatctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaaagctaaggcagcatatcaaattatcttttgtgaaatattgaattcatgctcttgctttcttttgcataagtctaatgtcattggttttatcttcagCTTTATACCAAAAACCTACATCTGGATGAAAAAGTCGATCTTCAGACTGTTGCTGCGTTCTGCAATGGCTATGTTGGAGCTGATTTAGAAGCATTGTGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC