Sequence
atgc intronic sequence ATGC exonic sequence...tttgagaagcttagctgcctaataaatatgatatttgtttgtctaatgcttccaagcaagcattgttttctgatgtcctcttctttctttgttaactcagTATGGCAGAAGTTGGAAGAAGAAAATGCTGATTTTTTCAGGGCCTATTACATAAGATTAAAATTGAAGAAACAAATCATTTTGTTTAATCATTTGCTTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g00990.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os05g12170.2 (Oryza sativa), 3'ss of exon 4
-tttgagaagcttagctgcctaataaatatgatatttgtttgtctaatgcttccaagcaagcattgttttctgatgtcctcttctttctttgttaactcagTATGGCAGAAGTTGGAAGAAGAAAATGCTGATTTTTTCAGGGCCTATTACATAAGATTAAAATTGAAGAAACAAATCATTTTGTTTAATCATTTGCTTGA
| | | ||| || || || ||| | | || | || | | | | | | | ||| |||| || || |||||||||||||| | |||||||||||| |||| || || |||| || |||||||| || |||||||| ||||| || | |||||||| || || | ||
ctattgaatacttgagtgacttctatg-atgcttggagacagttcagcattttgatgtatctagtatagctctaaagccttcccttttgtttttttttcagTATGGCAGAAACTCGAAGAAGAAAATTCTGAGTTCTTTCGGGCTTACTACATAAGGTTGAAATTGAAAAAACAGATTAACTTGTTTAACCACTTATTGGA
upper sequence: Vv15s0046g00990.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G02860.2 (Glycine max), 3'ss of exon 4
tttgagaagcttagctgcctaataaatatgatatttgtttgtctaatgcttccaagcaag-----cattgttttctgatgtcctcttctt--tctttgttaactcagTATGGCAGAAGTTGGAAGAAGAAAATGCTGATTTTTTCAGGGCCTATTACATAAGATTAAAATTGAAGAAACAAATCATTTTGTTTAATCATTTGCTTGA
| || || || || || | | | ||| | || | ||| | ||||| |||| ||| | | || || || |||| |||||||||||||||||||||||||| ||||| ||||||||||||||||| || || ||| |||||||||| || ||||| | || || |||||||| |||||
------attatttgcattcttgtatattttctgtaccttttataagtggatgcaaactcatgtcccattgctttc-aatgctttgtaattgatcctttttaattcagTATGGCAGAAGTTGGAAGAAGAGAATGCCGATTTTTTCAGGGCCTACTATATCAGACTAAAATTGAAAAAGCAAATACTATTATTCAATCATTTACTTGA
upper sequence: Vv15s0046g00990.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G06230.2 (Glycine max), 3'ss of exon 4
tttgagaagcttagctgcctaataaatatgatatttgtttgtctaatgcttccaagc--aagcattgtt--ttctgatgtcctcttctt--tctttgttaactcagTATGGCAGAAGTTGGAAGAAGAAAATGCTGATTTTTTCAGGGCCTATTACATAAGATTAAAATTGAAGAAACAAATCATTTTGTTTAATCATTTGCTTGA
| | || || || || | || ||| | || | ||| | ||| || || ||| | | || ||||| |||| |||||||||||||||||||||||||| || |||||||| ||||||||||| || || || |||||||||| || ||||| | || || |||||||| |||||
------attacttgcattcttgtatattttccataccttttataagtggatgcaaactcaagtcccatttctttcaatgctttgtaattgatcttttttaattcagTATGGCAGAAGTTGGAAGAAGAGAACGCTGATTTCTTCAGGGCCTACTATATCAGGCTAAAATTGAAAAAGCAAATACTATTATTCAATCATTTACTTGA
upper sequence: Vv15s0046g00990.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G44420.1 (Glycine max), 3'ss of exon 4
tttgagaagctta-gctgcc-taataaatatgatatttgtttgtctaatgcttccaagcaagcattgttttctgatgtcctcttctttctttgtt---aactcagTATGGCAGAAGTTGGAAGAAGAAAATGCTGATTTTTTCAGGGCCTATTACATAAGATTAAAATTGAAGAAACAAATCATTTTGTTTAATCATTTGCTTGA
| || || |||| | || ||| | || | |||| ||| ||||| ||||| | |||| ||||||| || || ||||||||||||||| ||||||| || || ||||||| || |||||||| || || || ||||||| || | ||||| ||||||| ||||||||||||||
----aatggcctacactgcagttttatctattttcctttatacatagatgccctcaaatct-cattgccttctgtttgattcttttttctttttttaaaattcagTATGGCAGAAGCTGGAAGAGGAGAACACTGATTTCTTTAGGGCCTACTATATCAGGCTAAAATTAAAAAGGCAAATACTTTTGTTCAATCATTTGCTTGA
upper sequence: Vv15s0046g00990.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G61700.1 (Arabidopsis thaliana), 3'ss of exon 4
tttgagaagcttagctgcctaataaatatgatatttgtttgtctaatgcttccaagcaagcattgttttctgatgtcctcttctttctt---tgttaactcagTATGGCAGAAGTTGGAAGAAGAAAATGCTGATTTTTTCAGGGCCTATTACATAAGATTAAAATTGAAGAAACAAATCATTTTGTTTAATCATTTGCTTGA
| | ||| | || ||| ||| | | | | | || || | ||||||| | || | | || ||| || ||||| |||||||| |||||||||||||| || || ||||||||||| ||||| ||||| | ||| ||||||| ||||| |||||||| ||||||||||||||
--aatgcatgttatatattgtttagttatagcattagca-acgtgaaacatgaaatgaaatctctatttctgactctcctttttattttatgtgtgaaatcagTTTGGCAGAAATTGGAAGAAGAAAACGCAGACTTTTTCAGGGCATATTATATAAGGCTGAAACTGAAGAAGCAAATAATTTTGTTCAATCATTTGCTTGA
upper sequence: Vv15s0046g00990.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G46420.2 (Arabidopsis thaliana), 3'ss of exon 4
tttgagaagcttagctgcctaataaatatgatatttgtttgtctaatgcttccaagcaagcattgttttc-tgatgtcctctt--------ctttctttgttaactcagTATGGCAGAAGTTGGAAGAAGAAAATGCTGATTTTTTCAGGGCCTATTACATAAGATTAAAATTGAAGAAACAAATCATTTTGTTTAATCATTTGCTTGA
|| | || | ||||||| | | || ||| || |||||| || | | | | ||| | |||||| | | ||||||||| || ||||||||||||| || || ||||||||||| |||||||| ||| | ||| ||||||| ||||| || | || ||||||||||||||
---------------------gtaca-atcacttttgtttatttc-catatcaaagtaa-cattgtgttagtaacttaccctttatgataacgttcttttgaattttagTATGGCAAAAACTGGAAGAAGAAAACGCAGAGTTTTTCAGGGCATATTACATCAGACTGAAACTGAAGAAGCAAATAGTTGTATTCAATCATTTGCTTGAMapped 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|110703971|gb|EE081373.1|EE081373EST: GAAGACCCTCTTGAGTCGTGCAAGGATAGATCCTGGATTTACAACTTTGG TATGGCAGAAGTTGGAAGAAGAAAATGCTGATTTTTTCAGGGCCTATTACA
genomic: GAAGACCCTCTTGAGTCGTGCAAGGATAGATCCTGGATTTACAACTTTGGgtaggcattg ... gttaactcagTATGGCAGAAGTTGGAAGAAGAAAATGCTGATTTTTTCAGGGCCTATTACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgcttccaagcaagcattgttttctgatgtcctcttctttctttgttaactcagTATGGCAGAAGTTGGAAGAAGAAAATGCTGATTTTTTCAGGGCCTATTACATAAGATTAAAATTGAAGAAACAAATCATTTTGTTTAATCATTTGCTTGA
tgttaac putative branch site (score: 2)
ttttctgatgtcctct CT-rich tract
attgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttgagaagcttagctgcctaataaatatgatatttgtttgtctaatgcttccaagcaagcattgttttctgatgtcctcttctttctttgttaactcagTATGGCAGAAGTTGGAAGAAGAAAATGCTGATTTTTTCAGGGCCTATTACATAAGATTAAAATTGAAGAAACAAATCATTTTGTTTAATCATTTGCTTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - -gctgcct
- - - - - - - - - - aataaat
- - - - - - - - - - - - - - - - - - - - - ctaatgc
- - - - - - - - - - - - - - - - - - - - - - - - - tccaagc