Sequence
atgc intronic sequence ATGC exonic sequencegtaagatttttttctctttttttaaaattgttatttttaaaatttaggtttaattttttttacttttttcgcatataatgaatgcttcattcttttggatatatattctgctttcttactgagagtcagcttggttctacttatatcattggcaattttgatttgtgtctcaatgaaatcagATCTTAAAGAGAGAAACAGCCCTAGCAACTGCAGCTGTTTATGATTCAATGTTTGCAGGAGAAGATGGCACCATTCCCGCAACCTTCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g06830.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA04G43530.1 (Glycine max), 3'ss of exon 8
gtaagatttttttctctttttttaaaattgttatttttaaaatttaggtttaattttttttacttttttcgcatataatgaatgcttcattcttttggatatatattctgctttcttactgagagtcagcttggttctacttatatcattggcaattttgatttgtgtctcaatgaaatcagATCTTAAAGAGAGAAACAGCCCTAGCAACTGCAGCTGTTTATGATTCAATGTTTGCAGGAGAAGATGGCACCATTCCCGCAACCTTCCAG
| | || | |||||||| ||||| | |||| || | || | || | | | | |||| | | | ||| || ||| || || || || || | |||| |||||| ||||||| || ||||| |||||||||||||| ||||||||||||||||| | | |||||||||||| | || ||||||||||||
------------------------------------------gtaaagtatcttttttttttcttttcatac---caatggatattaaat-------aaaatttccttgtatcaaatgttgagccttggat--gttgta-ttacatttctgaaaaa---aggttatgaatatatga--ccagATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATGTTTTCTGCAGAAGATGGCACTGTACCTGCAACCTTCCAG
upper sequence: Vv18s0001g06830.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA04G43650.1 (Glycine max), 3'ss of exon 8
gtaagatttttttctctttttttaaaattgttatttttaaaatttaggtttaattttttttacttttttcgcatat-aatgaatgcttcattcttttggatatatattctgctttcttactgagagtcagcttggttctacttatatcattggcaattttgatttgtgtctcaatgaaatcagATCTTAAAGAGAGAAACAGCCCTAGCAACTGCAGCTGTTTATGATTCAATGTTTGCAGGAGAAGATGGCACCATTCCCGCAACCTTCCAG
|| | | |||||| ||| || |||| |||| || | || | || | | ||| || | || || ||| || ||| || || || || || | ||||| |||||| ||||||| || ||||| |||||||||||||| ||||||||||||||||| | | |||||| ||||| | || ||||| ||||||
-----------------------------------------------gtaaagtatttttttttttcttttcataccaatggatattaaatacaatttcct-tgtatcaaatgttgtgccttggat--------gttgta-ttacatttctgaaaag---aggttatgcatgtatgaa--cagATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATGTTTTCTGCAGAAGACGGCACTGTACCTGCAACATTCCAG
upper sequence: Vv18s0001g06830.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA12G37130.2 (Glycine max), 3'ss of exon 9
gtaagatttttttctctttttttaaaattgttatttttaaaatttaggtttaattttttttacttttttcgcatataatgaatgcttcattcttttggatatatattctgctttcttactgagagtcagcttggttctacttatatcattggcaattttgatttgtgtctcaatgaaatcagATCTTAAAGAGAGAAACAGCCCTAGCAACTGCAGCTGTTTATGATTCAATGTTTGCAGGAGAAGATGGCACCATTCCCGCAACCTTCCAG
|| | | |||||| | |||| | |||| || | || | || | | ||| || | || || ||| || ||| || || || || || | ||||| |||||| ||||||| || ||||| |||||||||||||| ||||||||||||||||| | | |||||| ||||| | || ||||| ||||||
-----------------------------------------------gtaaagtatttttttttctttttatac-caatggatattaaatacaatttcct-tgtatcaaatgttgtgccttggat--------gttgta-ttacatttctgaaaag---aggttatgcatgtatgaa--cagATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATGTTTTCTGCAGAAGACGGCACTGTACCTGCAACATTCCAGMapped 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|110383911|gb|EC948316.1|EC948316EST: AACATCTGCGTTCAATGGGTGAAACTAATGCTCTTCTACAGAAAAGCAAT ATCTTAAAGAGAGAAACGGCCCTAGCAACTGCAGCTGTTTATGATTCAATG
genomic: AACATCTGCGTTCAATGGGTGAAACTAATGCTCTTCTACAGAAAAGCAATgtaagatttt ... atgaaatcagATCTTAAAGAGAGAAACAGCCCTAGCAACTGCAGCTGTTTATGATTCAATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcttggttctacttatatcattggcaattttgatttgtgtctcaatgaaatcagATCTTAAAGAGAGAAACAGCCCTAGCAACTGCAGCTGTTTATGATTCAATGTTTGCAGGAGAAGATGGCACCATTCCCGCAACCTTCCAG
ttttgat putative branch site (score: 4)
aattttgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagatttttttctctttttttaaaattgttatttttaaaatttaggtttaattttttttacttttttcgcatataatgaatgcttcattcttttggatatatattctgctttcttactgagagtcagcttggttctacttatatcattggcaattttgatttgtgtctcaatgaaatcagATCTTAAAGAGAGAAACAGCCCTAGCAACTGCAGCTGTTTATGATTCAATGTTTGCAGGAGAAGATGGCACCATTCCCGCAACCTTCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG