Sequence
atgc intronic sequence ATGC exonic sequence...tggtcaagatagttacagtgtgtttatgctaccaaaagtgcatatgacaggcctatatattttgacattttaatcttatattatggaatttatttttcagGATATGTATGAATTCATGGCTTTGGATAGGCCAACAACTCCTGCTATAGATCGTGGAATAGCATTACACAAAATGATCAGACTTATTACCATGGGCTTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g03750.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: LOC_Os02g32660.1 (Oryza sativa), 3'ss of exon 16
-----tggtcaagatagtt-acagtgtgtttatgctaccaaaagtgcatatgacaggcctatatattttgacattttaatcttatattatggaatttatttttcagGATATGTATGAATTCATGGCTTTGGATAGGCCAACAACTCCTGCTATAGATCGTGGAATAGCATTACACAAAATGATCAGACTTATTACCATGGGCTTAG
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tctttgagttttaattgttgagaaaatgcatatacatgcagGA-TATGTATGA-ATTTTAATGAATACTGGCATGAGAACCTCACAT-ACTGTACTTATG---CAGGATATGTATGATTTTATGGCTCTGGACAGACCGGCAACACCTAGCATTGATCGTGGAATAGCATTGCATAAAATGATTAGACTTATCACAATGGGGTTAG
upper sequence: Vv08s0007g03750.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GRMZM2G032628_T01 (Zea mays), 3'ss of exon 16
tggtcaagatagttacagtgtgtttatgctaccaaaagtgcatatgacaggcctatatattttgacattttaatcttata---ttatggaatttattttt-cagGATATGTATGAATTCATGGCTTTGGATAGGCCAACAACTCCTGCTATAGATCGTGGAATAGCATTACACAAAATGATCAGACTTATTACCATGGGCTTAG
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--atttggcctttttc--ttccactattctttgaaaaatacatgtagaaacacggaacaataataaatggtaacatgagaacctcactggttctatttatgcagGATATGTATGATTTCATGGCCCTCGATAGACCTTCAACTCCTACCATTGATCGTGGGATAGCATTACATAAGATGATTAGACTTATCACAATGGGTTTAG
upper sequence: Vv08s0007g03750.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GRMZM2G073054_T02 (Zea mays), 3'ss of exon 16
-------tggtcaagata-gttacagtgtgtttatgctaccaaaagtgcatatgacaggcctatatattttgacattttaatcttatattatggaatttatttttcagGATATGTATGAATTCATGGCTTTGGATAGGCCAACAACTCCTGCTATAGATCGTGGAATAGCATTACACAAAATGATCAGACTTATTACCATGGGCTTAG
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ctgttgatactcagtacatgcagaagtgtagtattg-tgctgtaaactc-tgtttcagaatagaacagaattacatgaacatctcaactt------ctcttctggcagGATATGTATGATTTCATGGCTCTGGACAGGCCTTCAACGCCTCGCATCGATCGTGGGATAGCATTACATAAAATGATTAGGCTTGTCACAATGGGTTTAG
upper sequence: Vv08s0007g03750.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: AT5G03650.1 (Arabidopsis thaliana), 3'ss of exon 16
tggtcaagatagttacagtgtgtttatgctaccaaaagtgcatatgacaggcctatatatt---ttgacattttaatcttatattatggaatttatt----tttcagGATATGTATGAATTCATGGCTTTGGATAGGCCAACAACTCCTGCTATAGATCGTGGAATAGCATTACACAAAATGATCAGACTTATTACCATGGGCTTAG
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-------------------------------gtatagatagattagacaccgttttacattaaactcattattaaaagttatgtgagcggtgttgttcgggttccagGATATGTATGATTTCATGGCAGTAGACAGACCATCAACTCCTCTTATCGATAGAGGAATAGCTTTGCACAAAATGATTAGGCTTATAACTATGGGATTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gacaggcctatatattttgacattttaatcttatattatggaatttatttttcagGATATGTATGAATTCATGGCTTTGGATAGGCCAACAACTCCTGCTATAGATCGTGGAATAGCATTACACAAAATGATCAGACTTATTACCATGGGCTTAG
ttttaat putative branch site (score: 3)
tttatttttc putative PPT
tatatattttgacatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggtcaagatagttacagtgtgtttatgctaccaaaagtgcatatgacaggcctatatattttgacattttaatcttatattatggaatttatttttcagGATATGTATGAATTCATGGCTTTGGATAGGCCAACAACTCCTGCTATAGATCGTGGAATAGCATTACACAAAATGATCAGACTTATTACCATGGGCTTAG
- - - - - - - - - - - - - -gctacca
- - - - - - - - - - - - - - - - - - - -gcatatg
- - - - - - - - - - - - - - - - - - - - - - - acaggcc