Sequence
atgc intronic sequence ATGC exonic sequence...tcaaaaggaagacatattctttactggcatcaggaattgtgtaaaaaaaaaagagataaacatacaaatcaccgtctcacttgtcaattgtgttttgaagAACCAGATGCCTGGAGGAAGGAGCGGACGAGTCCTTCCTGAAACCGGTGCGGCTGTCGGACATGAGCAATATCAAGCTCCACATACTGAAAAGCAGGTGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G012384_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os11g04720.1 (Oryza sativa), 3'ss of exon 4
tcaaaaggaagacatattctttactggcatcaggaattgtgtaaaaaaaaaagagataaacatacaaatcaccgtctcacttgtcaattgtgttttgaagAACCAGATGCCTGGAGGAAGGAGCGGACGAGTCCTTCCTGAAACCGGTGCGGCTGTCGGACATGAGCAATATCAAGCTCCACATACTGAAAAGCAGGTGC------
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--acatggagaata-atcctgtgtttaatttctggattgcatatcatggtttttgatcttagaataaact-ctgatacagtt-ttgattttgttatct-gaatcagATGCCTGGAGGAAGGAGCTGATGAATTTTTCCTCAAACCAGTTCGGCTCTCCGACATGAGCAAGCTGAAGCCCCACATACTGAAAAGCAGATGCAAGGAG
upper sequence: GRMZM2G012384_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os12g04500.1 (Oryza sativa), 3'ss of exon 4
tcaaaaggaagacatattctttactggcatcaggaattgtgtaaaaaaaaaagagataaacatacaaatcaccgtctcacttgtcaattgtgttttgaagAACCAGATGCCTGGAGGAAGGAGCGGACGAGTCCTTCCTGAAACCGGTGCGGCTGTCGGACATGAGCAATATCAAGCTCCACATACTGAAAAGCAGGTGC------
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--acatggagaata-attctgtgttcaatttctggattgcatatcatggtttttgatcttagaataaact-ctgatacagttat-gattttgttatct-gaatcagATGCCTGGAGGAAGGAGCTGATGAATTTTTCCTCAAACCAGTTCGGCTCTCCGACATGAGCAAGCTGAAGCCCCACATACTGAAAAGCAGATGCAAGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaaaaagagataaacatacaaatcaccgtctcacttgtcaattgtgttttgaagAACCAGATGCCTGGAGGAAGGAGCGGACGAGTCCTTCCTGAAACCGGTGCGGCTGTCGGACATGAGCAATATCAAGCTCCACATACTGAAAAGCAGGTGC
gtctcac putative branch site (score: 3)
ataaacatacaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcaaaaggaagacatattctttactggcatcaggaattgtgtaaaaaaaaaagagataaacatacaaatcaccgtctcacttgtcaattgtgttttgaagAACCAGATGCCTGGAGGAAGGAGCGGACGAGTCCTTCCTGAAACCGGTGCGGCTGTCGGACATGAGCAATATCAAGCTCCACATACTGAAAAGCAGGTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- aaaaggaa
- - - - - - - - - -tttactg
- - - - - - - - - - - - - gcatcag
- - - - - - - - - - - - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - gagataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catacaa