Sequence
atgc intronic sequence ATGC exonic sequence...aacaaaacacgagagataaaatggacagtggctacaagtgtaatgttctggcgatagcttcactagtcggcatgttgattgagtccataacttgttttagGGGTCAGGCCGAGAAGGAATTCAAGGTGGAGGTTGAAGCCATCGGCAAAGTGAGGCACAAGCACCTTGTCGGTCTCATCGGGTACTGCGCAGAAGGCCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G478876_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g12680.2 (Oryza sativa), 3'ss of exon 1
aacaaaacacgagagataaaatggacagtg-gctacaagtgtaatgttctggc-gatagcttcactagtcggcatgttgatt--gagtcca--taacttgttttagGGGTCAGGCCGAGAAGGAATTCAAGGTGGAGGTTGAAGCCATCGGCAAAGTGAGGCACAAGCACCTTGTCGGTCTCATCGGGTACTGCGCAGAAGGCCCT
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----gaagttgatgaattataggtttattatatcacgtacggataatcatgtctgaagaaattagggat--gcctgctgatctggaattaaactgtcctttttcagGGGTCAAGCAGAGAAGGAATTCAAGGTGGAGGTAGAGGCGATCGGCAAGGTGAGGCACAAGCATCTGGTTGGTCTCGTTGGTTACTGCGCGGAAGGGCCC
upper sequence: GRMZM2G478876_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA11G12570.1 (Glycine max), 3'ss of exon 1
aacaaaacacgagagataaaatggacagtggctacaagtgtaatgttctggcgatagcttca-ctagtcgg-----catgttgattga-gtccataacttgttttagGGGTCAGGCCGAGAAGGAATTCAAGGTGGAGGTTGAAGCCATCGGCAAAGTGAGGCACAAGCACCTTGTCGGTCTCATCGGGTACTGCGCAGAAGGCCCT
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---atgctgctgcatctttagt--atgctaatttagtgtaaaacctttctgtcatatccccatcttattgaaaattcatgcgcattattgtacataattaact--agGGGTCAAGCTGAGAAGGAGTTTAAGGTGGAGGTTGAAGCTATTGGAAAAGTAAGGCATAAGAATTTGGTTCGTTTGGTAGGATATTGTGCAGAAGGTGCT
upper sequence: GRMZM2G478876_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA04G01440.1 (Glycine max), 3'ss of exon 1
aacaaaacacgagagataaaatggacagtggctacaagtg-taatgttctggcgatagcttcactagtcggcatgttgattgagtccataact-tgttttagGGGTCAGGCCGAGAAGGAATTCAAGGTGGAGGTTGAAGCCATCGGCAAAGTGAGGCACAAGCACCTTGTCGGTCTCATCGGGTACTGCGCAGAAGGCCCT
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-atctctttcctgaaataacg-gaacatttctttgatataatctttctctccccccgccatggcttattgaaattcatgtgtattgtttaattgtaactaagGGGTCAGGCAGAGAAAGAGTTTAAGGTGGAGGTTGAAGCCATTGGAAAAGTGAAACATAAGAATTTGGTGGGGTTAGTTGGATATTGCGCAGAAGGTGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctggcgatagcttcactagtcggcatgttgattgagtccataacttgttttagGGGTCAGGCCGAGAAGGAATTCAAGGTGGAGGTTGAAGCCATCGGCAAAGTGAGGCACAAGCACCTTGTCGGTCTCATCGGGTACTGCGCAGAAGGCCCT
ccataac putative branch site (score: 3)
cttgtttt CT-rich tract
ttgtttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aacaaaacacgagagataaaatggacagtggctacaagtgtaatgttctggcgatagcttcactagtcggcatgttgattgagtccataacttgttttagGGGTCAGGCCGAGAAGGAATTCAAGGTGGAGGTTGAAGCCATCGGCAAAGTGAGGCACAAGCACCTTGTCGGTCTCATCGGGTACTGCGCAGAAGGCCCT
aacaaaa
- - - - - - -agataaaa
- - - - - - - - - - - - - - - gctacaa
- - - - - - - - - - - - - - - - - - - - - -tgttctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgat