Sequence
atgc intronic sequence ATGC exonic sequence...ccagcactggggaggggaaggtaagaaattcttttttttttgcatgtgatgcttctttttttccatgtctgaccacattttcgttgaatattcatgccagCCCAAGTTATTGGATGAGAATAGACCACTATCTACAAAAGGGCTGTAGACAAGAACTATAACCTGAAAATGAAAGCATCAAGGTTTATTTTCAATGAAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G440820_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA16G19310.1 (Glycine max), 3'ss of exon 3
ccagcactggggaggggaaggtaagaaattcttttttttttgc--atgtgatgcttctttttttccatgtctgaccacattttcgttgaatattcatgccagCCCAAGTTATTGGATGAGAA-TAGACCACTATCTACAAAAGGGCTGTAGACAAGAACTATAACCTGAAAATGAAAGCATCAAGGTTTATTTTCAATGAAAT
| || | | || | ||| | | || | ||| | || | | | |||||| || || ||| |||| ||| | ||||||||||| |||| |||||||| || |||||||| ||||||| ||| || |||| |||||||| || ||||| ||||||| |||||
----------------gtagttcaattatatcaacatatttactagtatggtagagcttatgcatgatata-aagtaaattttc-----atcctcttgc-agCCTAAGCTGTTGGATGAGAAGCAGACAACTATCTATAAGAGGGCTGTTGACAAGAGTTATCACTTGAAGATGAAAGCGTCTAGGTTCATTTTCAGTGAAA-
upper sequence: GRMZM2G440820_T01 (Zea mays), 3'ss of exon 1
lower sequence: PP1S264_34V6.1 (Physcomitrella patens), 3'ss of exon 5
--ccagcactgggg-aggggaaggtaagaaattcttttttttttgcatgtgatgcttctttttttccatgtctgaccacattttcgttgaatattcatgccagCCCAAGTTATTGGATGAGAA-TAGACCACTATCTACAAAAGGGCTGTAGACAAGAACTATAACCTGAAAATGAAAGCATCAAGGTTTATTTTCAATGAAAT
|| || | | || | ||| | | | ||| | ||| | | ||| ||||| | | | |||| | | | ||||||||||| || |||||||| ||||||| | || || |||||||| |||||||| ||| ||||||||||||| |||||||| || || |||| ||||
taccttcatttaattataggtatagcagatagttatctttgaacttaactgaag-tccttcaggaccatggc--attaatgtttcatcactgttccgatgcagCCCAAGTTGTTAGATGAGAAGCAGACCACAGTGTATAAGAGGGCTGTGGACAAGAATTATCACCTGAAAATGAAGGCATCAAGATTCATCTTCAGCGAAA- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgatgcttctttttttccatgtctgaccacattttcgttgaatattcatgccagCCCAAGTTATTGGATGAGAATAGACCACTATCTACAAAAGGGCTGTAGACAAGAACTATAACCTGAAAATGAAAGCATCAAGGTTTATTTTCAATGAAAT
gtctgac putative branch site (score: 3)
ttcttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccagcactggggaggggaaggtaagaaattcttttttttttgcatgtgatgcttctttttttccatgtctgaccacattttcgttgaatattcatgccagCCCAAGTTATTGGATGAGAATAGACCACTATCTACAAAAGGGCTGTAGACAAGAACTATAACCTGAAAATGAAAGCATCAAGGTTTATTTTCAATGAAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
ccagcac
- - - - - - - - - - gtaagaaa
- - - - - - - - - - - - - - - - - - - - tgcatgt