Sequence
atgc intronic sequence ATGC exonic sequence...tgatatcctgtgatactggatttcgttaaatgagtgattatctgtttaagtaagagatcttgtagattatttcatgttaatggattcattgacttgatagGTCCTTACACCAAATGTTCCTGATATTGTGGTTGCTCCACCTGATGATGGGCATCTTCGGCATGTGATTGACACAATGGCTCTGCACGTACTTGATGGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G133308_T02 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os02g08360.1 (Oryza sativa), 3'ss of exon 10
-------tgatatcctgtgatactggatttcg-ttaaatgagtgattatctgtttaagtaagagatcttgtagattatttcatgttaatggattcattgacttgatagGTCCTTACACCAAATGTTCCTGATATTGTGGTTGCTCCACCTGATGATGGGCATCTTCGGCATGTGATTGACACAATGGCTCTGCACGTACTTGATGGTG
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tcttggatgaggatatctgcagttagcttgaaattgaatgatatctaataagttttaacca-acattttggttattattctaatttcat-------ttggtttaacagGTCCTCACACCAAATGTTCCTGATATAGTGGTTGCTCCGCCAGATGATGCACATGTTCGGCATGTGATTGACACAATGGCTCTGCATGTACTTGACGGGG
upper sequence: GRMZM2G133308_T02 (Zea mays), 3'ss of exon 10
lower sequence: Vv04s0008g06810.t01 (Vitis vinifera), 3'ss of exon 9
tgatatcctgtgatactggatttcgttaaatgagtgattatct-gtttaagtaagagatcttgtagattatttcatgttaatggattcat-tgacttgatagGTCCTTACACCAAATGTTCCTGATATTGTGGTTGCTCCACCTGATGATGGGCATCTTCGGCATGTGATTGACACAATGGCTCTGCACGTACTTGATGGTG
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--atagcctaaatttgcttataatttccactctttagttttatagatttgatttttttctttcttaatttgaacgtgttgctggtgacatgtgaatgcatagGTTCTCACTCCAAATGTCCCTGATATAATGGTTTCTCCTCCTGAGGATGATCATCTCCATCATGTGATCGACACAATGGCTCTATACGTTCTGGATGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaagtaagagatcttgtagattatttcatgttaatggattcattgacttgatagGTCCTTACACCAAATGTTCCTGATATTGTGGTTGCTCCACCTGATGATGGGCATCTTCGGCATGTGATTGACACAATGGCTCTGCACGTACTTGATGGTG
cattgac putative branch site (score: 3)
attatttcatgttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgatatcctgtgatactggatttcgttaaatgagtgattatctgtttaagtaagagatcttgtagattatttcatgttaatggattcattgacttgatagGTCCTTACACCAAATGTTCCTGATATTGTGGTTGCTCCACCTGATGATGGGCATCTTCGGCATGTGATTGACACAATGGCTCTGCACGTACTTGATGGTG
- - - - - -gatactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgtta