Sequence
atgc intronic sequence ATGC exonic sequence...gggcaaacaatgaagtgttcttttctcttaaaatgcataacttttctctttgtggcttttagcttgtgatatcaccattaatagctgtgctctttttcagACATGTGGGCGGTTGGTGCTATTTTGGCTGAGCTTTTTACACTGTCCCCACTTTTTCCTGGTGAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G045241_T07 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g63020.1 (Oryza sativa), 3'ss of exon 8
------------------gggcaaacaatgaagtgttcttttctcttaaaatgc---------ataacttttctctttgtg--------gcttttagcttgtgatatcacc----------attaatagctgtgctctttttcagACATGTGGGCGGTTGGTGCTATTTTGGCTGAGCTTTTTACACTGTCCCCACTTTTTCCTGGTGAAAG
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gtgatgcctattatcccagcccctgcattttactacttccatttttattaatgccagctcaacatgaaatttgagtttgtgcatataaaactcgcattgcatgaaactactgaattatataactgatagatgtgcacttcctcagATATGTGGGCTGTTGGTGCAATTTTGGCTGAGCTTTTCACACTGTCTCCACTTTTCCCTGGTGGAAG
upper sequence: GRMZM2G045241_T07 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA03G21610.2 (Glycine max), 3'ss of exon 8
-gggcaaacaatgaagtgttcttttctcttaaaatgcataacttttctctttgtggcttttagcttgtgatatcaccattaatagctgtgctctttttcagACATGTGGGCGGTTGGTGCTATTTTGGCTGAGCTTTTTACACTGTCCCCACTTTTTCCTGGTGAAAG
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atggtgaa-acttgtttgcccttatttatggtgtaactcagatgatattatgcttgctttcttcttaaggtggtgaaataacaaatagaaattatttgcagACATGTGGGCAGTTGGTGCTATATTAGCTGAGCTTTTTACTTTGACCCCCATATTTCCTGGTGAAAG
upper sequence: GRMZM2G045241_T07 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA16G10820.2 (Glycine max), 3'ss of exon 9
-gggcaaacaatgaagtgttcttttctcttaaaatgcataacttttctctttgtggcttttagcttgtgatatcaccattaatagctgtgctcttttt-cagACATGTGGGCGGTTGGTGCTATTTTGGCTGAGCTTTTTACACTGTCCCCACTTTTTCCTGGTGAAAG
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tgtgatgaaacttgtttgccattatttatgccataacgcagatgatattatgcttgctttcttcttaaggtggtg--aataacaaatataaattatttgcagACATGTGGGCAGTTGGTGCCATATTAGCTGAGCTTTTTACTTTGACCCCTATATTTCCTGGTGAAAG
upper sequence: GRMZM2G045241_T07 (Zea mays), 3'ss of exon 4
lower sequence: Vv07s0151g00350.t01 (Vitis vinifera), 3'ss of exon 8
--gggcaaacaatgaagtgttcttttctcttaaaatgcataacttttctctttgtggcttttagcttgtgatatcaccattaatagctgtgctctttttcagACATGTGGGCGGTTGGTGCTATTTTGGCTGAGCTTTTTACACTGTCCCCACTTTTTCCTGGTGAAAG
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tggtttgagctctaattgattcatgttaaattgctcatttggagattcatttagtattggatagcagaggac-tgatgtctaatcatggaaatacttg-cagACATGTGGGCAGTTGGTGCAATACTAGCTGAGCTTTTCACTTTGTGCCCAATTTTCCCTGGTGAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctctttgtggcttttagcttgtgatatcaccattaatagctgtgctctttttcagACATGTGGGCGGTTGGTGCTATTTTGGCTGAGCTTTTTACACTGTCCCCACTTTTTCCTGGTGAAAG
cattaat putative branch site (score: 3)
ctgtgctctttttc putative PPT
attaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gggcaaacaatgaagtgttcttttctcttaaaatgcataacttttctctttgtggcttttagcttgtgatatcaccattaatagctgtgctctttttcagACATGTGGGCGGTTGGTGCTATTTTGGCTGAGCTTTTTACACTGTCCCCACTTTTTCCTGGTGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT