Sequence
atgc intronic sequence ATGC exonic sequencegtatgtcatagttgctaaattctagaattcgtttacctgccttagatatctgggttcatttacctgctcttgctgctgctaaattaactgtaccttttgcagCCACGGTCATTTGGGTTTGCAGGTACAAAGGATAAGCGTGCTGTTACTACACAGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G096553_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os05g43374.1 (Oryza sativa), 3'ss of exon 1
gtatgtcatagttgctaaattctagaatt---cgtttacctgccttagatatctgggttcatttacctgctcttgctgc---tgctaaattaa---ctgtaccttttgca-------gCCACGGTCATTTGGGTTTGCAGGTACAAAGGATAAGCGTGCTGTTACTACACAGCAG
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gtatacctcggttgctaactcataacattgtgttcttgtttctactgaatgctttgattcttcttttttaccttccttcgcattcctagttgatttctataccttttgcaatttgcagTCACGTTCATTCGGGTTTGCAGGGACAAAAGATAAACGTGCTGTTACAACACAACAG
upper sequence: GRMZM2G096553_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA19G43270.1 (Glycine max), 3'ss of exon 5
gtatgtcatagttgctaaattctagaattcgtttacctgc---cttagatatctgggttcatttacctgctcttgctgctgctaaattaactgtaccttttgcagCCACGGTCATTTGGGTTTGCAGGTACAAAGGATAAGCGTGCTGTTACTACACAGCAG
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atatatgcgatctgctaa-tattattactgatttatggataagctaagcttgttgagttcttccactt--ttctgttttaactgattgataattaactg--acagCCAAAATCATTTGGATTTGCGGGTACAAAGGACAAGCGTGCTGTCACGACCCAAAGG
upper sequence: GRMZM2G096553_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA03G40600.1 (Glycine max), 3'ss of exon 5
-----gtatgtcatagttgctaaattctagaattcgtttacctgccttagatatctgggttcatttacctgctcttgctgctgctaaattaactgtacct--tttgcagCCACGGTCATTTGGGTTTGCAGGTACAAAGGATAAGCGTGCTGTTACTACACAGCAG
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aataaatatatgcaatctgctaaaat-tattattgattta--tggataagcttgttgagttctttcact-----tttctgtt-ttaaatgattgataattaactgacagCCAAAATCATTTGGATTTGCGGGTACAAAGGACAAGCGTGCTGTCACGACCCAAAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atctgggttcatttacctgctcttgctgctgctaaattaactgtaccttttgcagCCACGGTCATTTGGGTTTGCAGGTACAAAGGATAAGCGTGCTGTTACTACACAGCAG
aattaac putative branch site (score: 2)
tacctttt putative PPT
taaattaact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtcatagttgctaaattctagaattcgtttacctgccttagatatctgggttcatttacctgctcttgctgctgctaaattaactgtaccttttgcagCCACGGTCATTTGGGTTTGCAGGTACAAAGGATAAGCGTGCTGTTACTACACAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT