Sequence
atgc intronic sequence ATGC exonic sequencegtaggcatctttcttgccaaagatattgcacccttttgcttcaccatattcttacatcattcattgtcttctctaacagTTGACTGTTTATCATCATAATGGAAGCCCATGCTATCGGTGCCTCTTTCCAACTCCACCACCTGTGGCAGCCTGCCAGAGATGCTCAGACAGTGGTGTCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G157836_T03 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os02g32460.1 (Oryza sativa), 3'ss of exon 7
gtaggcatctttcttgccaaagatattgcacccttttgcttcaccatattcttacatcattcat----tgtcttctctaacagTTGACTGTTTATCATCATAATGGAAGCCCATGCTATCGGTGCCTCTTTCCAACTCCACCACCTGTGGCAGCCTGCCAGAGATGCTCAGACAGTGGTGTCC---------
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gtaaatctcattactcctgataatctt-cattcttgtagttcactttattctttttttattcatgcactgacttctctaacagttgactgtttatcatcataatggaagTCCATGCTATCGATGCCTTTTCCCAAATCCACCACCAGTGGCAGCCTGCCAGAGATGCTCAGACAGTGGAGTTCTTGGGGTTG
upper sequence: GRMZM2G157836_T03 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA02G46300.1 (Glycine max), 3'ss of exon 7
-----------------------------------------gtaggcatcttt---cttgccaaaga-tattgcaccctt--ttgcttcaccatattcttacatcattcattgt--cttctctaacagTTGACTGTTTATCATCATAATGGAAGCCCATGCTATCGGTGCCTCTTTCCAACTCCACCACCTGTGGCAGCCTGCCAGAGATGCTCAGACAGTGGTGTCC
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gtatatgtctaaatatttgtttttctagcatttaagttaactaatgcttcatggagctcgacaagtactcccgcgtacttgattatatcacataatttgaggattaactacggaaacttatgctgcagCTTACTGTCTACAATTACAATGGTGGTCCTTGCTATCGGTGCCTCTTTCCAACTCCACCACCTAGAACAGCATGCCAAAGTTGTGCTGAGGGTGGAGTTC
upper sequence: GRMZM2G157836_T03 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA14G02410.1 (Glycine max), 3'ss of exon 6
----------------------------------------gtaggcatctttcttgccaaagatattgcaccct--tttgcttcaccatattcttacatcattcattgt-----cttctctaacagTTGACTGTTTATCATCATAATGGAAGCCCATGCTATCGGTGCCTCTTTCCAACTCCACCACCTGTGGCAGCCTGCCAGAGATGCTCAGACAGTGGTGTCC
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gtatatgtctaattattttttttcccagcatttaagttgaataatgcttcatagagcgacaagtactcctgtgtgcttgattatatcacataatttgaggattaactatggaaacttttactgcagCTTACTGTCTACAATTACAATGGTGGTCCTTGCTATCGATGCCTCTTTCCAACTCCACCACCTAGAACAGCATGCCAAAGTTGTGCTGAGGGTGGAGTTC
upper sequence: GRMZM2G157836_T03 (Zea mays), 3'ss of exon 8
lower sequence: Vv19s0090g01020.t01 (Vitis vinifera), 3'ss of exon 7
--------------------------------------------------------------------------gtaggcatctttcttgccaaagatattgcacccttttgcttcaccatattcttacatcattcattgtcttctctaacagTTGACTGTTTATCATCATAATGGAAGCCCATGCTATCGGTGCCTCTTTCCAACTCCACCACCTGTGGCAGCCTGCCAGAGATGCTCAGACAGTGGTGTCC
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gtatgttatgcatctgctttcatattctgttattcttgtgttacacctatagaatttcttatgtgaataagggaatgggaagtgtaatcttcatc-attttttgttgtggaaactcatagcataactgcatcatgaaattttttgt---atagCTCACTGTTTACAATTACAAAGGAGGTCCATGCTATCGGTGCCTTTTTCCTACTCCACCACCAACAACAGCATGTCAAAGATGTTCAGATAGTGGAGTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgcacccttttgcttcaccatattcttacatcattcattgtcttctctaacagTTGACTGTTTATCATCATAATGGAAGCCCATGCTATCGGTGCCTCTTTCCAACTCCACCACCTGTGGCAGCCTGCCAGAGATGCTCAGACAGTGGTGTCC
ttcttac putative branch site (score: 2)
ttcattgtcttctct putative PPT
atattctta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggcatctttcttgccaaagatattgcacccttttgcttcaccatattcttacatcattcattgtcttctctaacagTTGACTGTTTATCATCATAATGGAAGCCCATGCTATCGGTGCCTCTTTCCAACTCCACCACCTGTGGCAGCCTGCCAGAGATGCTCAGACAGTGGTGTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG