Sequence
atgc intronic sequence ATGC exonic sequence...ctgtttgtttatttcactccctcttgagggagctttcatccttctctatatgagatgctgctactacaacatactgatcactaatagttcttcttaacagGCACTACATTATGATATTCGAAGAGGTCCACATAGTGTTGGATCCCATGTGCGTGATGCTGCTGCCTATGTTTGTTGGGCATTTGGCCGTGCGTATTATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0048g00470.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G42560.1 (Glycine max), 3'ss of exon 7
ctgtttgtttatttcactccctcttgagggagctttcatccttctctatatgaga--tgctgctactacaacatact--gatcactaatagttcttcttaacagGCACTACATTATGATATTCGAAGAGGTCCACATAGTGTTGGATCCCATGTGCGTGATGCTGCTGCCTATGTTTGTTGGGCATTTGGCCGTGCGTATTATC
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----tgatttatggttgttactttgtagttttccttaagacatccttatttgagagatacatttactgcatagcagtgggaataattataattttgtttgttagGCACTACATTATGATGTTCGAAGAGGTCCACACAGTGTTGGGTCTCATGTACGTGATGCTGCTGCATATGTATGTTGGGCGTTTGGACGTGCATATTATC
upper sequence: Vv15s0048g00470.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA20G24470.1 (Glycine max), 3'ss of exon 8
ctgtttgtttatttcactccctcttgagggagctttcatccttctctatat--gagatgctgctactacaacatact--gatcactaatagttcttcttaacagGCACTACATTATGATATTCGAAGAGGTCCACATAGTGTTGGATCCCATGTGCGTGATGCTGCTGCCTATGTTTGTTGGGCATTTGGCCGTGCGTATTATC
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----tgatttatggttggtactttgtagttttccttaagatatccttattttagagatacatttactacatagcagtgggaataattataattttgtttattagGCACTACATTATGATGTTCGAAGAGGTCCACACAGTGTTGGGTCTCATGTACGCGATGCTGCTGCATATGTATGTTGGGCGTTTGGACGTGCATATTATC
upper sequence: Vv15s0048g00470.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G60740.1 (Arabidopsis thaliana), 3'ss of exon 7
--------ctgttt-gtttatttcactccctcttgagggagctttcatccttctctatatgagatgctgctactacaaca-tactga------------tcactaatagttcttcttaacagGCACTACATTATGATATTCGAAGAGGTCCACATAGTGTTGGATCCCATGTGCGTGATGCTGCTGCCTATGTTTGTTGGGCATTTGGCCGTGCGTATTATC
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gtcgtactctatttcatgcacatgaatacttatatctatagtcatcgcatacgaagaaatggcatcacccacccacaatagtgcagaagttctgtggatttacatctaaatttcatttacagGCACTCCATTATGATGTTCGCCGAGGTCCACACAGTGTTGGATCTCATGTGCGTGATGCAGCTGCCTATGTTTGTTGGGCATTTGGGCGCGCCTATTCCC
upper sequence: Vv15s0048g00470.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S281_64V6.1 (Physcomitrella patens), 3'ss of exon 10
ctgtttgtttatttcactccctcttgagggagctttcatccttctctatatgagatgctgcta--ctacaacatactgatcactaatagttcttcttaacagGCACTACATTATGATATTCGAAGAGGTCCACATAGTGTTGGATCCCATGTGCGTGATGCTGCTGCCTATGTTTGTTGGGCATTTGGCCGTGCGTATTATC
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--gttcttttgtaaaacttcttcaataaataattgttacaaagagtaggatattaacgtgttagtttgttgccttctcatttaagtcaagttggtgtggcagGCCCTCCATTATGATGTGCGAAGAGGTCCTCACAGCGTTGGATCTCATGTTCGAGATGCAGCGGCATATGTATGCTGGGCATTTGTGAGAGCATATTCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctatatgagatgctgctactacaacatactgatcactaatagttcttcttaacagGCACTACATTATGATATTCGAAGAGGTCCACATAGTGTTGGATCCCATGTGCGTGATGCTGCTGCCTATGTTTGTTGGGCATTTGGCCGTGCGTATTATC
cactaat putative branch site (score: 2)
ttcttctt putative PPT
taatagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgtttgtttatttcactccctcttgagggagctttcatccttctctatatgagatgctgctactacaacatactgatcactaatagttcttcttaacagGCACTACATTATGATATTCGAAGAGGTCCACATAGTGTTGGATCCCATGTGCGTGATGCTGCTGCCTATGTTTGTTGGGCATTTGGCCGTGCGTATTATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
ctgtttg
- - - - - - - cactccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgctac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catactg