Sequence
atgc intronic sequence ATGC exonic sequencegtaatgactcaattttgagttgatgttcggtgatttatttatttatttatttatttattattctgttgttaaacaatttggtgcgcattggggttaatggtttgattacaatgtgaattgggatctgtttggattgccatgttttgtttttgagttcttatgatgtaaaatgggttttgttgaaaattgtgattttcagTGGTCCACCTCGCTTTGAAGGAGATAGACCAAGGTTTGGTGACCGGGATGGGTACCGTGGAGGTCCACGAGGACCTCCAGGTGAGTTTGGTGACAAGGGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os04g35090.1 (Oryza sativa), 3'ss of exon 3
gtaatgactcaattttgagttgatgttcggtgatttatttatttatttatttatttattattctgttgttaaacaatttggtgcgcattggggttaatggtttgattacaatgtgaattgggatctgtttggattgccatgttttgtttt-tgagttcttatgatgtaaaatgggttttgttgaaaattgtgattttcagTGGTCCACCTCGCTTTGAAGGAGATAGACCAAGGTTTGGTGACCGGGATGGGTACCGTGGAGGTCCACGAGGACCTCCAGGTGAGTTTGGTGACAAGGGT
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-------------------------------------------------------------------------------------------atgtgttgatgtggtt-tggtttaagtta--atctgttc--atagtctttcctgatttaatggaggctgattctatactgttgattctctttgcgat----gtatgtagGGGCCCGCCTCGCTTTGAAGGGGACAGGCCAAGGTTTGGTGACAGAGATGGGTACCGTGGTGGTCCTCGTGGTGCTCCTGGTGACTTTGGTGGTGAGAAG
upper sequence: Vv02s0025g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g34460.1 (Oryza sativa), 3'ss of exon 3
gtaatgactcaattttgagttgatgttcggtgatttatttatttatttatttatttattattctgttgttaaacaatttggtgcgcattggggttaatggtttgattacaatgtgaattgggatctgtttggattgccatgttt-tgtttttgagttcttatgatgtaaaatgggttttgttgaaaattgtgattttcagTGGTCCACCTCGCTTTGAAGGAGATAGACCAAGGTTTGGTGACCGGGATGGGTACCGTGGAGGTCCACGAGGACCTCCAGGTGAGTTTGGTGACAAGGGT
| | || | | || | ||| ||| || | | || | |||| |||| | | | || || || | | || | || || || |||||||| || ||||| || |||||||||||||| ||||||||||| |||||||| || || || || | || ||||| ||||||| ||
-------------------------------------------------------------------------------------------aactga-ggcatatctgcatgttctgttgaattct---tgagctactgtggcaatattttctagttgtcgt----ttggctgatttctgattcctgtgatg-tgtttagGGGCCCACCTCGGTTCGAAGGGGACAGACCAAGGTTTGGAGACCGGGATGGCTACCGTGGTGGACCTCGTGGTGCGCCTGGTGATTTTGGTGGTGAGAAG
upper sequence: Vv02s0025g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g73160.1 (Oryza sativa), 3'ss of exon 3
gtaatgactcaattttgagttgatgttcggtgatttatttatttatttatttatttattattctgttgttaaacaatttggtgcgcattggggttaatggtttgattacaatgtgaattgggatctgtttggattgccatgttttgtttttgagttcttatgatgtaaaatgggttttgttgaaaattgtgattttcagTGGTCCACCTCGCTTTGAAGGAGATAGACCAAGGTTTGGTGACCGGGATGGGTACCGTGGAGGTCCACGAGGACCTCCAGGTGAGTTTGGTGACAAGGGT
|| | | | || | | ||| || |||| | |||| ||| | | ||| || | | || | | | | | ||| || || ||||||||||| || || || || |||||||||||| ||||||| ||| | || || ||||| || |||||||||| ||||||| | ||
-------------------------------------------------------------------------------------------------tgtactcaa-atgatataatctggctgct-tttgtttatgaatgtattgcctgaaaactctagtggagacactgatattatccttttctgttcgtgtggcagAGGCCCGCCTCGCTTTGAGGGTGACAGGCCCAGGTTTGGTGACAGGGATGGTTACAGGGGTGGCCCACGTGGTGCTCCAGGTGATTTTGGTGGCGAGAAG
upper sequence: Vv02s0025g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G043737_T01 (Zea mays), 3'ss of exon 3
gtaatgactcaattttgagttgatgttcggtgatttatttatttatttatttatttattattctgttgttaaacaatttggtgcgcattggggttaatggtttgattacaatgtgaattgggatctgtttggattgccatgttttgtttttgagttcttatgatgtaaaatgggttttgttgaaaattgtgattttcagTGGTCCACCTCGCTTTGAAGGAGATAGACCAAGGTTTGGTGACCGGGATGGGTACCGTGGAGGTCCACGAGGACCTCCAGGTGAGTTTGGTGACAAGGGT
| | ||||| | || || | || || | |||||| || | | | | || ||| | ||| || || || || || || ||| ||| ||||| || || || ||||||||||||||| |||||||||||||||| ||||| || || |||| ||||| ||||||| | |
-------------------------------------------------------------------------------------------taccgaggagcagattaaa--gttaaccaat-taggtacaaatctttaagttttgaattgttgatactgttatttaatcttctctttcctgtaacttatg-----tagGGGCCCAGGTCGTTTTGACGGCGACAGGCCAAGGTTTGGTGACAGGGATGGGTACCGTGGTGGTCCTCGTGGTGCTCCTGGTGACTTTGGTGGCGATAAG
upper sequence: Vv02s0025g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G446960_T01 (Zea mays), 3'ss of exon 3
gtaatgactcaattttgagttgatgttcggtgatttatttatttatttatttatttattattctgttgttaaacaatttggtgcgcattggggttaatggtttgattacaatgtgaattgggatctgtttggattgccatgttttgtttttgagttcttatgatgtaaaatgggttttgttgaaaattgtgatttt----cagTGGTCCACCTCGCTTTGAAGGAGATAGACCAAGGTTTGGTGACCGGGATGGGTACCGTGGAGGTCCACGAGGACCTCCAGGTGAGTTTGGTGACAAGGGT
| | | | |||| | || ||| | | | || || | | ||| | || || | || || | ||| || || | ||| || || ||||| | |||||| || || || ||||||||||| ||||||| ||| | ||||||||||| || |||||||||| ||||||| |
--------------------------------------------------------------------------------------------------cttctaaattcaatataaac----atcatatcacacattcctggttcgccactagaatctcactgtg-aatccacggttgcttacatattctgtttatttggcagGGGCCCTCCTCGTTATGAAGGTGACAGGCCTAGGTTTGGTGATAGGGATGGTTACAGAGGAGGTCCACGTGGCGCTCCAGGTGACTTTGGTGGTGATAAG
upper sequence: Vv02s0025g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G02410.3 (Glycine max), 3'ss of exon 3
gtaatgactcaattttgagttgatgttcggtgatttatttatttatttatttatttattattctgttgttaaacaatttggtgcgcattggggttaatggtttgattacaatgtgaattgggatctgtttggattgccatgttttgtttttgagttcttatgatgtaaaatgggttttgttgaaaattgtgattttcagTGGTCCACCTCGCTTTGAAGGAGATAGACCAAGGTTTGGTGACCGGGATGGGTACCGTGGAGGTCCACGAGGACCTCCAGGTGAGTTTGGTGACAAGGGT
||| | || || ||| || | |||| | | || | || | | | || || | |||| | ||| || |||||||||||||| ||||| || | ||||||||| ||||| ||||||||||||||||| |||||| ||||| || ||||||||||||
-----------------------------------------------------------------------------------------------------------gtaattttaacattcttcctcatggtttttacttttttactatgatttttctgtgtttgaccaaatattcaaatgtga-ttgttttcaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGTGGTGACCGTGATGGATACCGTGGAGGTCCACGCGGACCTGGTGGTGATTTCGGTGACAAGGGT
upper sequence: Vv02s0025g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G43110.1 (Glycine max), 3'ss of exon 3
gtaatgactcaattttgagttgatgttcggtgatttatttatttatttatttatttattattctgttgttaaacaatttggtgcgcattggggttaatggtttgattacaatgtgaattgggatct-gtttggattgccatgttttgtttttgagttcttatgatg-taaaatgggttttgttgaaaattgtgattttcagTGGTCCACCTCGCTTTGAAGGAGATAGACCAAGGTTTGGTGACCGGGATGGGTACCGTGGAGGTCCACGAGGACCTCCAGGTGAGTTTGGTGACAAGGGT
|| | || || |||| | | | |||| | | ||| | | || | |||| || ||||| | ||| || |||||||||||||| ||||| || | |||||||| ||||| ||||||||||||||||| |||||| ||||| || ||||||||||||
----------------------------------------------------------------------------------------------------------------gtaatttaacattcagttttcctcatcgt-ttttactatgatgtttctgttttgatcaaata---ttcaaatgtgattgttttgaacagGGGCCCACCTCGCTTTGACGGAGAGAGGAGATTCGGCGGTGACCGTGATGGATACCGTGGAGGTCCACGCGGACCTGGCGGTGATTTCGGTGACAAGGGT
upper sequence: Vv02s0025g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G52650.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaatgactcaattttgagttgatgttcggtgatttatttatttatttatttatttattattctgttgttaaacaatttggtgcgcattggggttaatggtttgattacaatgtgaattgggatctgtttggattgccatgttttgtttttgagttcttatgatgtaaaatgggttttgttgaaaattgtgattttcagTGGTCCACCTCGCTTTGAAGGAGATAGACCAAGGTTTGGTGACCGGGATGGGTACCGTGGAGGTCCACGAGGACCTCCAGGTGAGTTTGG---TGACAAGGGT
| | |||| |||| ||| | || |||| | | |||| ||||| | || | ||| | ||||||| ||| | |||||| || || | | | |||||| | || |||||||||||||| ||||||||||||| |||||| |||| || ||||||||||| ||| ||||||
-----------------------------------------------------------------------------------------gtgattaactctttgcttaacccat---ttcatgtctggcaaaaac----tttttttttttttaatttgtttgacatggtttgggtttctttgta---------tttcagAGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCGTGATGGGTACCGTGCAGGTCCTCGAG---CTGGTGGTGAGTTTGGAGGTGAAAAGGGT
upper sequence: Vv02s0025g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G25740.2 (Arabidopsis thaliana), 3'ss of exon 3
gtaatgactcaattttgagttgatgttcggtgatttatttatttatttatttatttattattctgttgttaaacaatttggtgcgcattggggttaatggtttgattac--aatgtgaattgggatctgtttggattgccatgttttgtttttgagttcttatgatgtaaaatgggttttgttgaaaattgtgattttcagTGGTCCACCTCGCTTTGAAGGAGATAGACCAAGGTTTGGTGACCGGGATGGGTACCGTGGAGGTCCACGAGGACCTCCAGGTGAGTTTGGTGACAAGGGT---------------------
| | |||| | || || || | | | ||| | ||| || | | | | | || | || ||||| || || ||||||| || |||||||||| ||| ||||| | || || ||||||||||| ||||| ||||||||||| ||||| || | | || ||| | | |
--------------------------------------------------------------------------------------------gcccacctggtgatcgccaaaggtagtttcatctttaaatcccttgacctgtccggtctgagggattggctaatttctgata----ttgttttggcttttg-ttttcagaggaccacctcgctctgatggagaccgtcccagatttggtgaccgtgatggataccgtggagGCCCACGTGGTGGTGATGAGAAGGGTGGAGCTCCAGCTGATTTCCAGCCGTCTTTCCAA
upper sequence: Vv02s0025g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G25740.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaatgactcaattttgagttgatgttcggtgatttatttatttatttatttatttattattctgttgttaaacaatttggtgcgcattggggttaatggtttgattacaatgtgaattgggatctgtttggattgccatgttttgtttttgagttcttatgatgtaaaatgggttttgttgaaaattgtgattttcagTGGTCCACCTCGCTTTGAAGGAGATAGACCAAGGTTTGGTGACCGGGATGGGTACCGTGGAGGTCCACGAGGACCTCCAGGTGAGTTTGGTGACAAGGGT
|| || | | | ||| | ||| || | | | | | || | || ||||| || || ||||||| || |||||||||| ||| ||||| | || || ||||||||||| ||||| ||||||||||| ||||| || | | || ||| | | |
----------------------------------------------------------------------------------------------------------------gtagtttcatctttaaatcccttgacctgtccggtctgagggattggctaatttctgata----ttgttttggcttttg-ttttcagAGGACCACCTCGCTCTGATGGAGACCGTCCCAGATTTGGTGACCGTGATGGATACCGTGGAGGCCCACGTGGTGGTGATGAGAAGGGTGGAGCTCCAGCTMapped 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|37189141|gb|CF608490.1|CF608490EST: TCCGTTAAGCCCGCCGGTAGGCCAATGGGACCACCTGGTGACCGCCCACG TGGTCCACCTCGCTTTGAAGGAGATAGACCAAGGTTTGGTGACCGGGATGG
genomic: TCCGTTAAGCCCGCCGGTAGGCCAATGGGACCACCTGGTGACCGCCCACGgtaatgactc ... tgattttcagTGGTCCACCTCGCTTTGAAGGAGATAGACCAAGGTTTGGTGACCGGGATGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttttgagttcttatgatgtaaaatgggttttgttgaaaattgtgattttcagTGGTCCACCTCGCTTTGAAGGAGATAGACCAAGGTTTGGTGACCGGGATGGGTACCGTGGAGGTCCACGAGGACCTCCAGGTGAGTTTGGTGACAAGGGT
ttttc CT-rich tract
ttatgatgtaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgactcaattttgagttgatgttcggtgatttatttatttatttatttatttattattctgttgttaaacaatttggtgcgcattggggttaatggtttgattacaatgtgaattgggatctgtttggattgccatgttttgtttttgagttcttatgatgtaaaatgggttttgttgaaaattgtgattttcagTGGTCCACCTCGCTTTGAAGGAGATAGACCAAGGTTTGGTGACCGGGATGGGTACCGTGGAGGTCCACGAGGACCTCCAGGTGAGTTTGGTGACAAGGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG