Sequence
atgc intronic sequence ATGC exonic sequence...ttgaattttccctttgttatttgatgtctatgtggcccattgaatggaattctttaaccacctactgtgtttgttgcatactgatgactatgaaacatagGTGCACCGTGTCCTGGTAGATGTAGTTTCTGCTGCTGCAAATGCTACGCCAGGTCTGGGGAGATATCCTCCTTTCAAGAGAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0089g00350.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA12G37100.1 (Glycine max), 3'ss of exon 10
ttgaattttccctttgttatttgatgtctatgtggcccattgaatggaattctttaaccacctactgtgtttgttgcatactga--------tgactatgaaacatagGTGCACCGTGTCCTGGTAGATGTAGTTTCTGCTGCTGCAAATGCTACGCCAGGTCTGGGGAGATATCCTCCTTTCAAGAGAGAG
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ttgtaccttgcagctaatgttgga-----atttgattcactgtgtgcatttgtt---ccttctatttcacttgttactcatggagattttctttgccttatggttcagGTGCATCGTGTCCTGATAGATATTGTTTCGTCTGCTGCCAATGCTACCCGTGGTTTGGGAAGATACCCACCTTTCAAGAGAGAG
upper sequence: Vv18s0089g00350.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA09G00430.2 (Glycine max), 3'ss of exon 10
---ttgaattttccctttgttatttgatgtctatgtggcccattgaatggaattctttaaccacctactgtgtttgttgcatactgatgactatgaaacatagGTGCACCGTGTCCTGGTAGATGTAGTTTCTGCTGCTGCAAATGCTACGCCAGGTCTGGGGAGATATCCTCCTTTCAAGAGAGAG
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caactaatgttggaatttg--gttcactgtctgcatttttcctagtttgttccttctattttacttgttactcatgg-acattctctttgccttatgctccagGTACATCGTGTCCTGATAGATATTGTTTCGTCTGCTGCCAATGCTACACCTGGTTTGGGAAGATACCCACCTTTCAAGAGAGAG
upper sequence: Vv18s0089g00350.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT1G10290.1 (Arabidopsis thaliana), 3'ss of exon 10
---ttgaattttccctttgttatttgatgtctatgtggcccattgaatggaattctttaaccacctactgtgtttg--ttgcatactgatgactatgaaacatagGTGCACCGTGTCCTGGTAGATGTAGTTTCTGCTGCTGCAAATGCTACGCCAGGTCTGGGGAGATATCCTCCTTTCAAGAGAGAG
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ccgtagatgtagctattttttggttcctactt-taaaactcat-gcatccagcttctgtcttatttac-gtgttgagctaacatggtcttaacttttgat--tagGTTCACCGAGTTCTTGTTGACATAGTTTCAGCTTCTGCAAATGCTACACCTGGACTTGGGAGATATCCTCCTTTCAAGCGAGAG
upper sequence: Vv18s0089g00350.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT1G59610.1 (Arabidopsis thaliana), 3'ss of exon 10
ttgaattttccctttgttatttgatgtctatgtggcccattgaatggaattctttaaccacctactgtgtttgttgcatactgatgactatgaaaca---tagGTGCACCGTGTCCTGGTAGATGTAGTTTCTGCTGCTGCAAATGCTACGCCAGGTCTGGGGAGATATCCTCCTTTCAAGAGAGAG
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tccagattcaaatttatta---aattcctactcaacctttccaacctggttgccttaccgtctcatctgttactgagctaatatggtctgaacttcttattagGTTCACCGAGTGCTTGTTGACATAGTTTCAGCTTCCGCGAATGCCACACCTGGTCTTGGGAGATATCCTCCTTTTAAGAGAGAGMapped 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|161717164|gb|FC065927.1|FC065927EST: AAGGTGTCTTGGAGCTTGCAAAAGAGCCATCACGGCTTTGTGTTGATGAG GTGCACCGTGTCCTGGTAGATGTAGTTTCTGCTGCTGCAAATGCTACGCCA
genomic: AAGGTGTCTTGGAGCTTGCAAAAGAGCCATCACGGCTTTGTGTTGATGAGgtaaggataa ... tgaaacatagGTGCACCGTGTCCTGGTAGATGTAGTTTCTGCTGCTGCAAATGCTACGCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggaattctttaaccacctactgtgtttgttgcatactgatgactatgaaacatagGTGCACCGTGTCCTGGTAGATGTAGTTTCTGCTGCTGCAAATGCTACGCCAGGTCTGGGGAGATATCCTCCTTTCAAGAGAGAG
tactgat putative branch site (score: 2)
tctttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgaattttccctttgttatttgatgtctatgtggcccattgaatggaattctttaaccacctactgtgtttgttgcatactgatgactatgaaacatagGTGCACCGTGTCCTGGTAGATGTAGTTTCTGCTGCTGCAAATGCTACGCCAGGTCTGGGGAGATATCCTCCTTTCAAGAGAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - tcccttt
- - - - - - - - - - -tgatgtc
- - - - - - - - - - - - - - - - tggccca
- - - - - - - - - - - - - - - - - - - - tgaatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaccta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatact