Sequence
atgc intronic sequence ATGC exonic sequence...ctaattcattcttagccattagctatatgcatagcttgtttatctttggttttagacttaataatatcagtcatgagcaacgtttcttcttgtgtcatagGTGATTGGGCAATTCAATCTTGGTTTTATCATTGGAAAGTTAGATCAAGATCTATTTATTGTGGATCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g00220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os02g37920.1 (Oryza sativa), 3'ss of exon 5
ctaattcattcttagccatta-gctatatgcatagcttgtttatctttggttttagacttaataatatcagtcatgagca--acgtttcttcttgtgtcatagGTGATTGGGCAATTCAATCTTGGTTTTATCATTGGAAAGTTAGATCAAGATCTATTTATTGTGGATCAG
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-ggatgaaatattaaaaaaagtgctgtatgaattctatatttctatttgcagt--actttgctaaagaagtttatgaacactaaataactagtacaccttcagGTTGTTGGGCAGTTTAATCTTGGTTTTATCATTGGAAAGCTGGACCAGGACCTATTTATTGTTGATCAG
upper sequence: Vv07s0005g00220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G02390.1 (Glycine max), 3'ss of exon 6
ctaattcattcttagccattagctatatgcata-gcttgtttatctttggttttagacttaataatatcagtcatgagcaacgtttcttcttgtgtca-tagGTGATTGGGCAATTCAATCTTGGTTTTATCATTGGAAAGTTAGATCAAGATCTATTTATTGTGGATCAG
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-aaattaaaatatattctttaacagctcaatcatatctgcacat-tcagattacatatatactgtatttactgatgattactgagacaacatgtttgaacagGTGATTGGGCAATTCAATCTTGGATTTATCATTTGTAAATTGGATCAAGATTTATTCATTGTGGATCAG
upper sequence: Vv07s0005g00220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA02G17420.1 (Glycine max), 3'ss of exon 6
ctaattcattcttagccattagctatatgcatagcttgtttatctttgg-ttttagacttaataatatcagtcatgagcaacgtttcttcttgtgtca-tagGTGATTGGGCAATTCAATCTTGGTTTTATCATTGGAAAGTTAGATCAAGATCTATTTATTGTGGATCAG
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-aaattaaaacatattctttaacagctca-atcatttctgcacgttcagattacatgtatactgtatttactgatgattactgagataacatgtatgaacagGTGATTGGGCAATTCAATCTTGGATTTATCATTTGTAAATTGGATCAAGATTTATTCATTGTGGACCAG
upper sequence: Vv07s0005g00220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT4G02460.1 (Arabidopsis thaliana), 3'ss of exon 5
----ctaattcatt--cttagccattagctat--atgcatagcttgtttatctttggttttagacttaataatatcagtcatgagcaacgttt-------cttcttgtgtcatagGTGATTGGGCAATTCAATCTTGGTTTTATCATTGGAAAGTTAGATCAAGATCTATTTATTGTGGATCAG
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gttgctatctttttgactaagcgagcaccgaaagattgatagattaaaaaaatttcattctactctatcctggctcggtcgagaaatatatttatctgttttttctgtgtgatagGTACTCGGGCAATTCAATCTTGGGTTCATCATTGCAAAATTGGAGCGAGATCTGTTCATTGTGGATCAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|110422541|gb|EC988867.1|EC988867EST: TACCGAGTTGGAGAAACTTTTCAAGAAAACAGGACTTTGGAAGAATGAAG GTGATTGGGCAATTCAATCTTGGTTTTATCATTGGAAAGTTAGATCAAGAT
genomic: TACCGAGTTGGAGAAACTTTTCAAG-AAACAGGACTTTGGAAGAATGAAGgttgtacact ... tgtgtcatagGTGATTGGGCAATTCAATCTTGGTTTTATCATTGGAAAGTTAGATCAAGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttggttttagacttaataatatcagtcatgagcaacgtttcttcttgtgtcatagGTGATTGGGCAATTCAATCTTGGTTTTATCATTGGAAAGTTAGATCAAGATCTATTTATTGTGGATCAG
acttaat putative branch site (score: 4)
tttcttcttgtgtc putative PPT
tttagacttaataata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctaattcattcttagccattagctatatgcatagcttgtttatctttggttttagacttaataatatcagtcatgagcaacgtttcttcttgtgtcatagGTGATTGGGCAATTCAATCTTGGTTTTATCATTGGAAAGTTAGATCAAGATCTATTTATTGTGGATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - -ttagcca
- - - - - - - - - - - - - -tgcatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgagc