Sequence
atgc intronic sequence ATGC exonic sequence...gtcaaaatgtacaactaatttcttttatgcatgtttcatctatgcatcatcttatgcatagggcataacttttaccttttttgtgccttgatgtatgtagGTATATGCACTAACCAAAGAGCGTGATACACTAAGGAGAGAACAGAATAAAAAAAGTGATGCAGCTGCCCTTTTGAAAGAAAAGGATGAGATCATCAATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G168654_T01 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os05g48620.1 (Oryza sativa), 3'ss of exon 4
gtcaaaatgtacaactaatttcttttatgcatgtttcatctatgcatcatcttatgcatagggc--ataacttttaccttttttgtgccttgatgtatgtagGTATATGCACTAACCAAAGAGCGTGATACACTAAGGAGAGAACAGAATAAAAAAAGTGATGCAGCTGCCCTTTTGAAAGAAAAGGATGAGATCATCAATC
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atacaggctaaccacattctttcttggtacctagtgcatctaaa-ataagattattcttatcgctgatatgttttatatttgc-atgcttcaatgtttatagGTGTATGCCTTGACCAAAGAACGGGATACATTAAGGAGAGAGCAAAATAAAAAAAGTGATGCAGCTGCTCTTTTGAAAGAAAAGGATGAAATTATCAGTC
upper sequence: GRMZM2G168654_T01 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA15G01980.1 (Glycine max), 3'ss of exon 5
gtcaaaatgtacaactaatttcttttatgcatgtttcatctatgcatcatcttatgcatagggcataacttttacc---ttttttgtgcctt-gatgtat----gtagGTATATGCACTAACCAAAGAGCGTGATACACTAAGGAGAGAACAGAATAAAAAAAGTGATGCAGCTGCCCTTTTGAAAGAAAAGGATGAGATCATCAATC
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-------tgtgtc-tttcttttgaggatgaagatcaaatttctcttttctcttaatactgagctataactgttatgggattttatgtgtttttggtgtttaattgcagGTTTATGCTCTCACTAAGGAAAGGGATACACTCCGTCGAGAGCAGAATAAAAAAAGTGATGCAGCTGCTCTCTTGAAAGAAAAGGATGAAATAATTAATC
upper sequence: GRMZM2G168654_T01 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA13G43330.1 (Glycine max), 3'ss of exon 7
gtcaaaatgtacaactaatttcttttatgcatgtttcatctatgcatcatcttatgcatagggcataacttttacc---ttttttgtgcctt-gatgtat----gtagGTATATGCACTAACCAAAGAGCGTGATACACTAAGGAGAGAACAGAATAAAAAAAGTGATGCAGCTGCCCTTTTGAAAGAAAAGGATGAGATCATCAATC
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---gaagattattaggcattatgtatatgt---tttgaagtgtatgctacctcatt--tgagctacagctgttatgggattttatgtgtttttggtgtttaattgcagGTTTATGCTCTCACTAAGGAAAGGGATACACTCCGCCGAGAGCAGAATAAAAAAAGTGATGCAGCTGCTCTCTTGAAAGAAAAGGATGAAATAATTAATC
upper sequence: GRMZM2G168654_T01 (Zea mays), 3'ss of exon 12
lower sequence: AT1G79830.3 (Arabidopsis thaliana), 3'ss of exon 5
gtcaaaatgtacaactaatttcttttatgcatgtttcatctatgcatcatcttatgcatagggcata-acttttaccttttttgtgccttgatgtatgtagGTATATGCACTAACCAAAGAGCGTGATACACTAAGGAGAGAACAGAATAAAAAAAGTGATGCAGCTGCCCTTTTGAAAGAAAAGGATGAGATCATCAATC
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------------gtattatatcttttat-cattcttc-tctttcaattctcttcttttcattatatatatatatgccttcacagtgctt--atctttgtagGTTTATGCTCTCACCAAAGAGCGGGATACACTTAGAAGAGAACAGAACAAGAAAAGTGATGCTGCGGCCCTTTTGAAAGAAAAGGATGAAATAATAAATC
upper sequence: GRMZM2G168654_T01 (Zea mays), 3'ss of exon 12
lower sequence: Vv16s0098g00540.t01 (Vitis vinifera), 3'ss of exon 4
----gtcaaaatgtacaactaatttcttttatgcatgt-ttcatctatgcatcatcttatgcatagggcataacttttaccttttttgtgccttgatgtatgtagGTATATGCACTAACCAAAGAGCGTGATACACTAAGGAGAGAACAGAATAAAAAAAGTGATGCAGCTGCCCTTTTGAAAGAAAAGGATGAGATCATCAATC
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ccttgataagatat-taattaaaaaactcaaaatttatctttgtttaattgttaggattcttgttggtcttg---tataaatgcatccggtctgtatgttt-cagGTATATGCCCTTACTAAGGAAAGGGATACACTACGAAGAGAACATAGCAGAAAAAGTGATGCTGCTGCCCTTTTGAAAGAAAAAGATGAAATAATCAACC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcatcttatgcatagggcataacttttaccttttttgtgccttgatgtatgtagGTATATGCACTAACCAAAGAGCGTGATACACTAAGGAGAGAACAGAATAAAAAAAGTGATGCAGCTGCCCTTTTGAAAGAAAAGGATGAGATCATCAATC
ataactttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcaaaatgtacaactaatttcttttatgcatgtttcatctatgcatcatcttatgcatagggcataacttttaccttttttgtgccttgatgtatgtagGTATATGCACTAACCAAAGAGCGTGATACACTAAGGAGAGAACAGAATAAAAAAAGTGATGCAGCTGCCCTTTTGAAAGAAAAGGATGAGATCATCAATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - -caactaa
- - - - - - - - - - - - - -tgcatgt
- - - - - - - - - - - - - - - - - - - - -atgcatc
- - - - - - - - - - - - - - - - - - - - - - - - - - -atgcata