Sequence
atgc intronic sequence ATGC exonic sequence...aacccatgctgctgaatggatgcatgttggtggttttagcatgcatatttcttagtcaacttgggcttttgatatgctcagtctttacaacactctgcagGCTTCAGGGAAAGTCTCAAATTGTTCAGGAGGAATTAGTCAGGCTTGGTGAACAAATGGTTGACAGTGTTGAGGGCACAAGGGCTATTGCTTTGCAGCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA17G00480.1 (Glycine max), 3'ss of exon 7
--aacccatgctgctga-atggatgcatgttggtggttttagcatgcatatttcttagtcaacttgggcttttgatatgctcagtctttacaacactctgcagGCTTCAGGGAAAGTCTCAAATTGTTCAGGAGGAATTAGTCAGGCTTGGTGAACAAATGGTTGACAGTGTTGAGGGCACAAGGGCTATTGCTTTGCAGCTT
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ttgatacctagtaataataagtactaatgtctcagtttctattaaata-ataagggaatggacctaaaatct-attataatcctttatttgaa-atgctacagTCTTCAGGGAAAGTCTCAAATTGTTCAGGAAGAGTTAGTGAAGTTTGGTGAACAAATGGTTAGTAGTTCCGAAGGTACAAGAGCTCTAGCCTTGCAGTTA
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA07G40300.2 (Glycine max), 3'ss of exon 7
aacccatgctgctgaatggatgcatgttggtggttttagcatgcatatttcttagtcaacttgggcttttgatatgctc--agtcttta--caacactctgcagGCTTCAGGGAAAGTCTCAAATTGTTCAGGAGGAATTAGTCAGGCTTGGTGAACAAATGGTTGACAGTGTTGAGGGCACAAGGGCTATTGCTTTGCAGCTT
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-atttgt-ttaataaattgatacctagtaataagtactaactactaaacaataagggaa--tggacctaaaatctattataatcctttatttgaaatgctacagTCTTCAGGGAAAGTCTCAAATTGTTCAGGAAGAGTTAGTGAAGTTTGGTGAACAAATGGTTAGTAGTTCTGAAGGTACAAGAGCTCTAGCCTTGCAGTTG
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G59610.1 (Arabidopsis thaliana), 3'ss of exon 7
---aacccatgctgctgaatggatgcatgttggtggttttagcatgcatatttcttagtcaacttgggcttttgatatgctcagtctttacaacactctgcagGCTTCAGGGAAAGTCTCAAATTGTTCAGGAGGAATTAGTCAGGCTTGGTGAACAAATGGTTGACAGTGTTGAGGGCACAAGGGCTATTGCTTTGCAGCTT
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tgatgtctatcttttgttttagtttctggatgattatttaggga--catgattttggttcttatgatagtcctgaacttacaaattcctttgttaca-tgcagACTCCAGGGTAAGTCTCAAATAGTGCAGGACGAATTAGCGAGGCTTGGTGAGCAATTGGTTAGCAGTGCTGAAGGCACAAGGGCAATAGCTTTGGAGCTT
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G10290.1 (Arabidopsis thaliana), 3'ss of exon 7
--aacccatgctgctgaatggatgcatg-ttggtggttttagcatgcatatttcttagtcaacttgggcttttgatatgctca-gtctttacaacactctg--cagGCTTCAGGGAAAGTCTCAAATTGTTCAGGAGGAATTAGTCAGGCTTGGTGAACAAATGGTTGACAGTGTTGAGGGCACAAGGGCTATTGCTTTGCAGCTT
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gtattgcttctctccatatatgtgctttcttcatgatttttattatggtgttggcatatgacattggttgcttga-acgcatatggctttcaaattctttgtacagGCTCCAGGGTAAGTCTCAAATAGTGCAGGATGAGCTAGCGAGGCTTGGTGAACAACTAGTTAACAGTGCTGAAGGTACAAGGGCTATAGCTTTGGAGCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatttcttagtcaacttgggcttttgatatgctcagtctttacaacactctgcagGCTTCAGGGAAAGTCTCAAATTGTTCAGGAGGAATTAGTCAGGCTTGGTGAACAAATGGTTGACAGTGTTGAGGGCACAAGGGCTATTGCTTTGCAGCTT
ttttgat putative branch site (score: 4)
ttttgatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aacccatgctgctgaatggatgcatgttggtggttttagcatgcatatttcttagtcaacttgggcttttgatatgctcagtctttacaacactctgcagGCTTCAGGGAAAGTCTCAAATTGTTCAGGAGGAATTAGTCAGGCTTGGTGAACAAATGGTTGACAGTGTTGAGGGCACAAGGGCTATTGCTTTGCAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- -ccatgct
- - - - - - - - -ggatgca
- - - - - - - - - - - - -gttggtg
- - - - - - - - - - - - - - - - - - - gcatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tatgctc