Sequence
atgc intronic sequence ATGC exonic sequence...atcatatccttgcactagagatttctttattattgtgttagagaatgttatatccatgaattgtctggctattatttcctgatcaatttggcctgtgcagGAATATGATGTTGAGGATTCAATACTGCCCCTTCAGCCAGCACTGAATTACACTGCTCCTGAACTGGTTCGGAGTAGAGGATCTCCAGCTGGATCTGCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0089g00030.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G37070.1 (Glycine max), 3'ss of exon 3
-atcatatccttgcactagagatttctttattattgtgttagagaatgttatatccatgaattgtctggctattatttcctgatcaatttggc--ctgtgcagGAATATGATGTTGAGGATTCAATACTGCCCCTTCAGCCAGCACTGAATTACACTGCTCCTGAACTGGTTCGGAGTAGAGGATCTCCAGCTGGATCTGCTT
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aactatactattttatgtctg--tatcttattctcatcctcaggagcaaagtaagttttgcttaaatgacctgtatcatatt-tcactttgactgctgtacagGAATATGATGTTGAGGACTCTATTTTGCCACTTCAGCCATCACTTAATTACACTGCTCCTGAGCTGGTGAGGAGCACTGTGTCTTCGGCTGGGTGCTCAT
upper sequence: Vv18s0089g00030.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G00470.1 (Glycine max), 3'ss of exon 3
-atcatatccttgcactagagatttctttattattgtgttagagaatgttatatccatgaattgtctggctattatttcctgatcaatttggc--ctgtgcagGAATATGATGTTGAGGATTCAATACTGCCCCTTCAGCCAGCACTGAATTACACTGCTCCTGAACTGGTTCGGAGTAGAGGATCTCCAGCTGGATCTGCTT
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aattatactattttatctctg--tatcttattctcatcctcaggagcattgtaagttttgcttgaatgacctgtatcttatt-tcactttgactgctgtgcagGAATATGATGTTGAGGACTCTATCTTGCCACTTCAACCATCACTTAATTACACTGCTCCTGAGCTGGCGAGGAGCACTGCGTCTTCAGCTGGGTGCTCAT
upper sequence: Vv18s0089g00030.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G71410.1 (Arabidopsis thaliana), 3'ss of exon 3
atcatatccttgcactagagatttctttattattgtgttagagaatgttatatccatgaattgtctggctattatttcctgatcaatttggcctgtgcagGAATATGATGTTGAGGATTCAATACTGCCCCTTCAGCCAGCACTGAATTACACTGCTCCTGAACTGGTTCGGAGTAGAGGATCTCCAGCTGGATCTGCTT
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gtgcgtttattaaacttgaaatattatt-tgactgttgtatatc-tgatgtattcaactctacaagcgagatgatttcttgggtat----gactatgcagGAATACGACGTCGAGGATTCAATACTGCCAGTCCAGCCATCTCTAAATTACACTGCACCTGAACTGATGCGCAGCAAAAGTCCTTCAGCTGGAGCTTCGT
upper sequence: Vv18s0089g00030.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G22870.1 (Arabidopsis thaliana), 3'ss of exon 3
-------atcatatccttgcactagagatttctttattattgtgttagagaatgttatatccatgaattgtctggctattatttcctgatcaatttggcctgtgcagGAATATGATGTTGAGGATTCAATACTGCCCCTTCAGCCAGCACTGAATTACACTGCTCCTGAACTGGTTCGGAGTAGAGGATCTCCAGCTGGATCTGCTT
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gtgggtacttaaacttatgaattatgatcgattactagattggcatacaacttttttgattcaactctggtatctagatgaatatcctatgcatg-gatctatgcagGAATATGATGTTGAGGACTCAATCCTGCCACTCCAACCATCTTTAAATTATACTGCACCTGAATTGGTGCGGAGCAAAACTTCTTCGGCTGGAGTTTCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttatatccatgaattgtctggctattatttcctgatcaatttggcctgtgcagGAATATGATGTTGAGGATTCAATACTGCCCCTTCAGCCAGCACTGAATTACACTGCTCCTGAACTGGTTCGGAGTAGAGGATCTCCAGCTGGATCTGCTT
tcctgat putative branch site (score: 3)
tattattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcatatccttgcactagagatttctttattattgtgttagagaatgttatatccatgaattgtctggctattatttcctgatcaatttggcctgtgcagGAATATGATGTTGAGGATTCAATACTGCCCCTTCAGCCAGCACTGAATTACACTGCTCCTGAACTGGTTCGGAGTAGAGGATCTCCAGCTGGATCTGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - cttgcac
- - - - - - - - - - - - - - - - - - - - gagaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - -ccatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtctgg