Sequence
atgc intronic sequence ATGC exonic sequencegtatcatttcattcctagtaataagtgtgtgcttccatctataattctccatctcaatttctgtacttttatgggaataattctgatatgtgcttggaatacagATCTATGCACCATGGTGTGGTCATTGCCAAGCTCTTGAGCCAACATATAACAAGCTTGCCAAACATCTACATGGCATTGAGTCTCTTGTTATAGCCAAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g02890.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA11G20630.1 (Glycine max), 3'ss of exon 9
gtatcatttcattcctagtaataagtgtgtgcttccatct-ataattctccatctca-atttctgtactt-----ttatgggaataattctgatatgtgcttggaatac-agATCTATGCACCATGGTGTGGTCATTGCCAAGCTCTTGAGCCAACATATAACAAGCTTGCCAAACATCTACATGGCATTGAGTCTCTTGTTATAGCCAAAA
|| ||| | || |||| | |||| ||| | | || | | || | | | | ||| || | || ||| |||| |||| ||||| || |||||||| || ||||||||||| || |||||||| ||||||||||| |||||||| | ||||||||||| ||||||||||||| |
--------------------------gtacaattctaactcataagtttccaagtcatgtatttgcatgtgcagcttgttcgtgttaatctaatgtttg-ttgtaatattagATTTATGCTCCCTGGTGTGGCCACTGCCAAGCTCTGGAACCAACATACAACAAGCTTGCTAAACATCTTCGCAGCATTGAGTCTATTGTTATAGCCAAGA
upper sequence: Vv06s0004g02890.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA12G07260.1 (Glycine max), 3'ss of exon 9
gtatcatttcattcctagtaataagtgtgtgcttccatctataattctccatctcaattt-ctgtacttttatgggaataattctgatatgtgcttggaatacagATCTATGCACCATGGTGTGGTCATTGCCAAGCTCTTGAGCCAACATATAACAAGCTTGCCAAACATCTACATGGCATTGAGTCTCTTGTTATAGCCAAAA
| | | | | | || | ||||| | || | || || || | | | ||| || ||| ||| |||| | |||| |||||||| ||||| ||||| |||||||| || || |||||||| ||||||||||| |||||||| | |||||||||| ||||||||||||| |
-----------gtacaattcaaatccgttagtttcca-----agttatatatttccatgtgcagcttgtttgtgttaatctaatcgatggttgctgtaatattagATTTATGCACCCTGGTGCGGTCACTGCCAAGCCCTGGAACCAACATACAACAAGCTTGCTAAACATCTTCGCAACATTGAGTCTATTGTTATAGCCAAGA
upper sequence: Vv06s0004g02890.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA12G29550.1 (Glycine max), 3'ss of exon 9
gtatcatttcattcctagtaataagtgtgtgcttccatctataattctccatctcaatttctgtacttttatgggaataattctgatatgtgcttg--gaatacagATCTATGCACCATGGTGTGGTCATTGCCAAGCTCTTGAGCCAACATATAACAAGCTTGCCAAACATCTACATGGCATTGAGTCTCTTGTTATAGCCAAAA
|| || | | | | | | || | || | | | || || | | |||||| | | ||||| ||||| || |||||||| ||||||||||| || ||||||| ||| |||||||||| |||||||| | | |||||||||||||| |||||||| |
--------------------------gtaaaatttaaccctttacttttttgtgttatatttgcatctgcacattgatcatgttatttaatgcttgttggaatcagATTTATGCTCCCTGGTGTGGCCATTGCCAAGCACTGGAGCCAATATACGACAAGCTTGCAAAACATCTTCGTAATATTGAGTCTCTTGTAATAGCCAAGA
upper sequence: Vv06s0004g02890.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA13G40130.1 (Glycine max), 3'ss of exon 9
gtatcatttcattcctagtaataagtgtgtgcttccatctataattctccatctcaatttctgtacttttatgggaataattctgatatgtgcttggaatacagATCTATGCACCATGGTGTGGTCATTGCCAAGCTCTTGAGCCAACATATAACAAGCTTGCCAAACATCTACATGGCATTGAGTCTCTTGTTATAGCCAAAA
|||| | | | | | | | || || || | |||| || || || || | | || | ||| | ||||| ||||| || |||||||| ||||||||| | || ||||||| ||| ||||||||||| |||||||| | ||||| |||||||| |||||||| |
-----------------gtaa--aatttaaccctttacttttagtt----atatttgcatctgcacattgatcatgtta--tttaatgctcggttgaat--cagATTTATGCTCCCTGGTGTGGCCATTGCCAATCACTGGAGCCAATATACAACAAGCTTGCAAAACATCTTCGCAATATTGATTCTCTTGTAATAGCCAAGA
upper sequence: Vv06s0004g02890.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT5G60640.2 (Arabidopsis thaliana), 3'ss of exon 9
gtatcatttcattcctagtaataa-gtgtgtgcttccatctataattctccatc--tcaatttctgtacttttatgggaataat--tctgatatgtgcttggaatacagATCTATGCACCATGGTGTGGTCATTGCCAAGCTCTTGAGCCAACATATAACAAGCTTGCCAAACATCTACATGGCATTGAGTCTCTTGTTATAGCCAAAA
|||||| || | ||| || |||| || | | | || | | | | ||| | || | | || ||| |||| |||||||||||||| ||||||||||| |||||||||| |||||||| |||||||| ||| ||| | ||||| ||||| || ||| |||| |
-----------------gtaatattgtataaaaatccgtcaataaactgatatggatttactcacgtcttctcacctcagcaatactttgttcttaaaacaaaactcagGTCTACGCACCATGGTGTGGCCATTGCCAAGCCCTTGAGCCAATGTATAACAAACTTGCCAAGCATTTACGAAGTATTGATTCTCTCGTCATAACCAAGAMapped 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|37188365|gb|CF607714.1|CF607714EST: ATAACTTTGATGAAATTGTTATGGATGAATCAAAGGATGTTCTTCTTGAG ATCTATGCACCATGGTGTGGTCATTGCCAAGCTCTTGAGCCAACATATAAC
genomic: ATAACTTCGATGAAATTGTTTTGGATGAATCAAAGGATGTTCTTCTTGAGgtatcatttc ... tggaatacagATCTATGCACCATGGTGTGGTCATTGCCAAGCTCTTGAGCCAACATATAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catctcaatttctgtacttttatgggaataattctgatatgtgcttggaatacagATCTATGCACCATGGTGTGGTCATTGCCAAGCTCTTGAGCCAACATATAACAAGCTTGCCAAACATCTACATGGCATTGAGTCTCTTGTTATAGCCAAAA
ttctgat putative branch site (score: 3)
aataattctgatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatcatttcattcctagtaataagtgtgtgcttccatctataattctccatctcaatttctgtacttttatgggaataattctgatatgtgcttggaatacagATCTATGCACCATGGTGTGGTCATTGCCAAGCTCTTGAGCCAACATATAACAAGCTTGCCAAACATCTACATGGCATTGAGTCTCTTGTTATAGCCAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT