Sequence
atgc intronic sequence ATGC exonic sequencegtgaatgctgttcttggaaatattttgtgcaatgcatttctgtttgcttacttagtaaaatttggtgattgtagGTAGCGTTCTACGCTGTGATGTAACTGGAAAAATTCTAATGAAATGCTTCCTCTCTGGAATGCCTGATTTGAAGTTGGGTTTAAATGATAAAATTGGCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0012g00910.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os02g46510.1 (Oryza sativa), 3'ss of exon 6
------------------------gtgaatgctgttcttggaaatattttgtgc--aatgcatttctgtttg---cttacttagtaaaatttggtgattgtagGTAGCGTTCTACGCTGTGATGTAACTGGAAAAATTCTAATGAAATGCTTCCTCTCTGGAATGCCTGATTTGAAGTTGGGTTTAAATGATAAAATTGGCCT
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gtatttcatggattactatgattttattgtactgctctgatgtttttgttgtccttaatgttgctttgactgatgtttaatgtggaaattgccttctctgcagGGAGTGTTCTACGATGTGATGTGACTGGGAAGATTCTTATGAAGTGCTTCCTTTCTGGAATGCCTGATCTGAAATTGGGATTAAATGACAAGATCGGGCT
upper sequence: Vv02s0012g00910.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G331032_T01 (Zea mays), 3'ss of exon 6
-----------------------gtgaatgctgttcttggaaatattttgtgcaatgcatttctgtttgcttacttagtaaaatttggtgattgtagGTAGCGTTCTACGCTGTGATGTAACTGGAAAAATTCTAATGAAATGCTTCCTCTCTGGAATGCCTGATTTGAAGTTGGGTTTAAATGATAAAATTGGCCT
|| | ||| || |||| | | | ||| ||| || || | | | || ||| || |||||| | |||||||| || ||||| ||||| |||||||||||||| ||||||||||||||| ||||| |||| |||||||| || ||||| ||
gtactctatggaccaacctaattttggactgcacagttgtctttaccttgtattaattgatgttccttgtgtacata--aatgtgtcattcctgcagGGAGTGTTCTAAGATGTGATGTGACGGGAAAGATTCTTATGAAATGCTTCCTTTCTGGAATGCCTGATCTGAAGCTGGGATTAAATGACAAGATTGGACT
upper sequence: Vv02s0012g00910.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G04600.1 (Glycine max), 3'ss of exon 6
gtgaatgctgttcttggaaatattttgtgcaatgcatttctgtttgcttactta---gtaaaatttggtgattgtagGTAGCGTTCTACGCTGTGATGTAACTGGAAAAATTCTAATGAAATGCTTCCTCTCTGGAATGCCTGATTTGAAGTTGGGTTTAAATGATAAAATTGGCCT
| || || || | | |||| | |||| ||||||||| || | || | | ||||| ||||| ||| ||||||||||||| || || || |||| ||||| ||||| || ||||||||||||||||||||||||||||| ||||| || ||||||||
------gttggtcatgaattttcattgt-cttcacattgatgtttgcttgatttcttgctaattgttatgattttagGTGTTGTTTTACGCTGTGATGTTACGGGGAAGGTTCTTATGAAGTGCTTTCTTTCTGGAATGCCTGATTTGAAGTTGGGTTTGAATGACAAGATTGGCCT
upper sequence: Vv02s0012g00910.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA01G40700.1 (Glycine max), 3'ss of exon 6
gtgaatgctgttcttggaaatattttgtgcaatgcatttctgtttgcttacttagtaaaatttggtgattgtagGTAGCGTTCTACGCTGTGATGTAACTGGAAAAATTCTAATGAAATGCTTCCTCTCTGGAATGCCTGATTTGAAGTTGGGTTTAAATGATAAAATTGGCCT
|| | || | || | | | | || || || | || ||| || | | ||| || ||||| ||||| ||||||||| ||||||| || || || ||||| ||||| ||||| || ||||||||||| ||||||||||||||||| ||||| || ||||||||
gtaggtcatgatttttca--ttgtctccacattg-atgtttgcttgattgcctgctaattgtta-tgattttagGTGTTGTTCTACGCAGTGATGTTACGGGGAAGATTCTTATGAAGTGCTTTCTTTCTGGAATGCCGGATTTGAAGTTGGGTTTGAATGACAAGATTGGCCT
upper sequence: Vv02s0012g00910.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G46630.2 (Arabidopsis thaliana), 3'ss of exon 6
-------------gtgaatgctgttcttggaaat-attttgtgcaatgcatttctgtttg---cttacttagtaaaatttggtgattgt-agGTAGCGTTCTACGCTGTGATGTAACTGGAAAAATTCTAATGAAATGCTTCCTCTCTGGAATGCCTGATTTGAAGTTGGGTTTAAATGATAAAATTGGCCT
| ||| ||| || ||| | | || || || |||| | || || | | | ||| | || ||| | ||||| || |||||||| || || || || |||||||||| ||||| || ||||||||||||||||||||||| || |||||||||||||| ||
gtaaataattgccttttatgaagttttttgaagttgtctttcttgttgatttgctgtgtatgactggttttgcattttatggaaacggttagGCAATGTTCTTCGGTGTGATGTGACGGGGAAGGTTTTAATGAAATGTTTCCTTTCGGGAATGCCTGATTTGAAGTTGGGGTTGAATGATAAAATTGGTCT
upper sequence: Vv02s0012g00910.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S197_28V6.1 (Physcomitrella patens), 3'ss of exon 6
-------------------gtgaatgctgttcttggaaatattttgtgcaatgcatttctgtttg-----cttactt--agtaaa-atttggtgattgtagGTAGCGTTCTACGCTGTGATGTAACTGGAAAAATTCTAATGAAATGCTTCCTCTCTGGAATGCCTGATTTGAAGTTGGGTTTAAATGATAAAATTGGCCT
|| || | || || | ||||| | || | | ||| | | || | ||| ||||||| ||| ||| | | | || |||||||| ||||||||| |||||||||||||||| || || || ||||| ||| | ||| | || | || ||||||||||| ||
ttgcatcgattggtgtaatttggatcttcttatttcatgcgttttggattttatatctgttcttgaacgacatgtttgcactaactatttggtc-ttgcagGAACTACTTTGCGTTGTGATGTGACTGGAAAAGTTCTAATGAAATGCTTTCTTTCGGGGATGCCGGATCTTAAGCTTGGGCTCAACGATAAAATTGGACTMapped 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|29782813|gb|CB348455.2|CB348455EST: GTGTTTCTGGATATTGTGGAAAGTGTTAATCTTCTAATGTCTTCCAAAG GTAGCGTTCTACGCTGTGATGTAACTGGAAAAATTCTAATGAAATGCTTCC
genomic: GTGTTTCTGGATATTGTGGAAAGTGTTAATCTTCTAATGTCTTCCAAAGgtgaatgctg ... gtgattgtagGTAGCGTTCTACGCTGTGATGTAACTGGAAAAATTCTAATGAAATGCTTCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atattttgtgcaatgcatttctgtttgcttacttagtaaaatttggtgattgtagGTAGCGTTCTACGCTGTGATGTAACTGGAAAAATTCTAATGAAATGCTTCCTCTCTGGAATGCCTGATTTGAAGTTGGGTTTAAATGATAAAATTGGCCT
tgcttac putative branch site (score: 2)
ttacttagtaaaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaatgctgttcttggaaatattttgtgcaatgcatttctgtttgcttacttagtaaaatttggtgattgtagGTAGCGTTCTACGCTGTGATGTAACTGGAAAAATTCTAATGAAATGCTTCCTCTCTGGAATGCCTGATTTGAAGTTGGGTTTAAATGATAAAATTGGCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG