Sequence
atgc intronic sequence ATGC exonic sequence...aacctttttctgcttaatttgcttgctggaggatattctgcctaattcttctagtccccattttcatgccttcatttgtttgttcctgtttgattttcagGGATTTTTCTGTATGAGATGCTTTATGGCCGTACTCCTTTCAGAGGAAAGAATAGGCAGAAGACATTTTCCAACATCTTGCACAAAGATCTGACTTTTCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g04210.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: LOC_Os04g23890.3 (Oryza sativa), 3'ss of exon 19
aacctt---tttctgcttaatttgcttgctggaggatattctgcctaattcttctagtccccattttcatgccttcatttgtttgttcctgtttgattttcagGGATTTTTCTGTATGAGATGCTTTATGGCCGTACTCCTTTCAGAGGAAAGAATAGGCAGAAGACATTTTCCAACATCTTGCACAAAGATCTGACTTTTCC
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aaccatgagaacttgtttgatatg---gcattattatattgtttgatatgcattatgctaataataagatgacatccagctaacatcaattcccatgctatagGAATTCTATTGTATGAGATGCTGTATGGGCGTACACCTTTCCGAGGAAAGAACAGGAAAAAGACATTTTATAACATACTGCACAAAGACCTTACATTTCC
upper sequence: Vv03s0038g04210.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA16G19560.1 (Glycine max), 3'ss of exon 21
aacctttttctgcttaatttgcttgctggaggatattctgcctaattcttctagtccccattttcatgccttca--tttgtttgttcctgtttgattttcagGGATTTTTCTGTATGAGATGCTTTATGGCCGTACTCCTTTCAGAGGAAAGAATAGGCAGAAGACATTTTCCAACATCTTGCACAAAGATCTGACTTTTCC
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aaatagttattacttt-ttcactcattattaagtcatc-gtttgattatcacagcccgatgtttgacatttacgatttcgtttccttatcttctgaatatagGTATCTTGTTGTATGAGATGCTCTATGGTCGTACACCATTCAGAGGAAAGAATAGACAGAAGACATTTTCCAACATCTTACACAAGGATCTTACCTTTCC
upper sequence: Vv03s0038g04210.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA08G33520.1 (Glycine max), 3'ss of exon 2
aacctttttctgcttaatttgcttgctggaggatattctgcctaattcttctagtccccattttcatgccttca--tttgtttgttcctgtttgattttcagGGATTTTTCTGTATGAGATGCTTTATGGCCGTACTCCTTTCAGAGGAAAGAATAGGCAGAAGACATTTTCCAACATCTTGCACAAAGATCTGACTTTTCC
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--tcttttctcacactcctcttttattaattaagtcattgtttgattatcacatccctatttttgacattctcgattctgtttccttatcttctgaataaagGTATCTTGTTGTATGAGATGCTCTATGGTCGTACACCATTCAGAGGAAAGAATAGACAGAAGACATTTTCCAATATTTTACACAAGGATCTTACCTTTCC
upper sequence: Vv03s0038g04210.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: AT5G58140.2 (Arabidopsis thaliana), 3'ss of exon 20
aacctttttctgcttaatttgcttgctggaggatattctgcctaattcttctagtccccattttcatgccttcatttgtttgttcctgtttgattttcagGGATTTTTCTGTATGAGATGCTTTATGGCCGTACTCCTTTCAGAGGAAAGAATAGGCAGAAGACATTTTCCAACATCTTGCACAAAGATCTGACTTTTCC
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-----------gtataatctgcc-actatctt-taccttattttgatca-caaactgttattaatatgctcatctccttttatgtgtgtttg--ttgtagGTATCTTGTTGTATGAGATGCTTTATGGTCGCACACCTTTCAGGGGTAAGAATAGGCAAAAGACATTTGCCAACATCTTGCACAAAGATCTCACTTTCCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcttctagtccccattttcatgccttcatttgtttgttcctgtttgattttcagGGATTTTTCTGTATGAGATGCTTTATGGCCGTACTCCTTTCAGAGGAAAGAATAGGCAGAAGACATTTTCCAACATCTTGCACAAAGATCTGACTTTTCC
gtttgat putative branch site (score: 5)
ttcctgttt CT-rich tract
tttgatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aacctttttctgcttaatttgcttgctggaggatattctgcctaattcttctagtccccattttcatgccttcatttgtttgttcctgtttgattttcagGGATTTTTCTGTATGAGATGCTTTATGGCCGTACTCCTTTCAGAGGAAAGAATAGGCAGAAGACATTTTCCAACATCTTGCACAAAGATCTGACTTTTCC
- - - -ttctgct
- - - - - - - - - - gcttgct
- - - - - - - - - - - - - - - - - - tctgcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttcctgt