Sequence
atgc intronic sequence ATGC exonic sequence...aacttcacttctgctttctttattatatatctcattaatttaaaatgcacttcttactcatctaacatgtaccgttcaatttttttttctttctcaacagATTCAATTCTTTTTCCTGATGTACCAATTGCACTACGTTTGTCCAGCCATCTTCTGCTGGGTGTGGTGAGGATATATTCTAGAAAGGTTAATTACCTTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0220g00080.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os01g67250.2 (Oryza sativa), 3'ss of exon 1
aacttcacttctgctttctttattatatatctcattaatttaaaatgcacttcttactcatctaacatgtacc--gttcaatttttttttctttctcaacagATTCAATTCTTTTTCCTGATGTACCAATTGCACTACGTTTGTCCAGCCATCTTCTGCTGGGTGTGGTGAGGATATATTCTAGAAAGGTTAATTACCTTTT
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--atggaaatgttatgttttcctaacagtggtcatatatctgccatatgtctttttttttttcattttgagcttagtattaataatcatttttttcctgcagATTCAATTATATTCCCTGAAGTTCCGATTGCACTTCGATTATCAAGCCATCTTATGCTTGGTGTGGTCAGGATCTATTCTCGCAAGGTGAACTACCTATT
upper sequence: Vv00s0220g00080.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA18G48020.1 (Glycine max), 3'ss of exon 1
--------aacttcacttctgctttctttattatatatctcattaatttaaaatgcacttcttactcatctaacatgtaccgttcaatttttttttctttctcaacagATTCAATTCTTTTTCCTGATGTACCAATTGCACTACGTTTGTCCAGCCATCTTCTGCTGGGTGTGGTGAGGATATATTCTAGAAAGGTTAATTACCTTTT
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cctttgtaggttgtacgtgaacgtgctgcatttggtgttgtctaattttgat---catatttta-tcatctcatactta----tttagtcaattttatgaatgaacagATTCCATTCTTTTCCCTGAAGTACCAATTGCACTCCGTTTGTCCAGCCATCTTCTACTTGGTGTGGTGAGGATATATTCTAGAAAGGTGAATTACCTTTT
upper sequence: Vv00s0220g00080.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA09G38310.1 (Glycine max), 3'ss of exon 1
aacttcacttctgctttctttatta-tatatctcattaatttaa---aatgcacttcttactcatctaacatgtaccgttcaatttttttttctttctcaacagATTCAATTCTTTTTCCTGATGTACCAATTGCACTACGTTTGTCCAGCCATCTTCTGCTGGGTGTGGTGAGGATATATTCTAGAAAGGTTAATTACCTTTT
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----tccttcgtaggttgtatgtgaacgtgctgcatttgttgtatctaattttgatcatattttgtcatctcatacttatttagtcaattgtatgaatgtgcagATTCCATTCTTTTTCCTGAAATACCAATCGCACTCCGTTTGTCCAGCCATCTTCTACTTGGTGTGGTGAGGATATATTCTAGGAAGGTGAATTACCTTTT
upper sequence: Vv00s0220g00080.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G16270.1 (Arabidopsis thaliana), 3'ss of exon 2
--------------------------------------------------------------aacttcacttctgcttt------ctttattatatatctcattaatttaaaatgcactt---cttactcatctaacatgtacc---gttcaatttttttttctttctcaacagATTCAATTCTTTTTCCTGATGTACCAATTGCACTACGTTTGTCCAGCCATCTTCTGCTGGGTGTGGTGAGGATATATTCTAGAAAGGTTAATTACCTTTT
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gtgagtattttgctaccttttgcttttgtgtacaatacctctgattcaggtctcagttcgttgtgctcactagggttagcagaagctaaagtttccttctttttcagttgttatgtggctaaacaagttcatctaaaatatttcctaatataactaatttctttttctgagcagATTCTATTCTCTTTCCGGAAGCTCCGATTGCATTGCGATTGTCTAGTCATCTTCTGCTTGGTGTTGTGCGTATATATTCGAGAAAGGTGAATTACCTCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcacttcttactcatctaacatgtaccgttcaatttttttttctttctcaacagATTCAATTCTTTTTCCTGATGTACCAATTGCACTACGTTTGTCCAGCCATCTTCTGCTGGGTGTGGTGAGGATATATTCTAGAAAGGTTAATTACCTTTT
atctaac putative branch site (score: 2)
ccgttcaatttttttt putative PPT
ttcaatttttttttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aacttcacttctgctttctttattatatatctcattaatttaaaatgcacttcttactcatctaacatgtaccgttcaatttttttttctttctcaacagATTCAATTCTTTTTCCTGATGTACCAATTGCACTACGTTTGTCCAGCCATCTTCTGCTGGGTGTGGTGAGGATATATTCTAGAAAGGTTAATTACCTTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - -cttctgc
- - - - - - - - - - - - - - - - - - - - - -aatgcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - -actcatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgtac