Sequence
atgc intronic sequence ATGC exonic sequenceGCATGATTTCCAATTCTTTAACACACAAAGGCTGAATGAGTTGTATGAGAAAGAAGTGCGGTACCTCATGgtgtgtaatctttcttgccatgtcttgctgctttggtgatccataacctactttgtatgcacactttattcatttttgtttctatttttttttttaaatttcacag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: LOC_Os01g27040.1 (Oryza sativa), 5'ss of exon 18
GCATGATTTCCAATTCTTTAACACACAAAGGCTGAATGAGTTGTATGAGAAAGAAGTGCGGTACCTCATGgtg---tgtaatct----ttcttgccatgtcttgct----------------gctttggtgatccataacctactttgtatgcacactttatt---catttttgtttctatttttttttttaaatttcacag---------------------------------------------
||||||||||| ||||| |||| |||||||| ||||| |||||||| || ||||| |||||||| ||||| | | || | |||| ||| ||||| ||| | | ||||| | | | ||| ||| | ||||| | | | || ||| ||
ACATGATTTCCAGTTCTTCAACAACCAAAGGCTCAATGAATTGTATGAAAAGGAAGTCCGGTACCTTATGgtaatttcctagctaaaatgcttgtattgttttgctagatgttgagaaactagctcttggactccatgttgtgtctaatgtgccagtccgattaaatagcattgttcccgtactcagttaattgtttgccaattattattgataatcccaatgctaacttgagaaaaattattccag
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: 13113.m00246 (Oryza sativa), 5'ss of exon 18
GCATGATTTCCAATTCTTTAACACACAAAGGCTGAATGAGTTGTATGAGAAAGAAGTGCGGTACCTCATGgtg---tgtaatctttcttgcc-atgtcttgctgctttggtgatccataaccta---ctttgtatgcacactttattcatttt--tgtttctatttttttttttaaatttcacag----------------------------------------------------------------
||||||||||| ||||| |||| |||||||| ||||| |||||||| || ||||| |||||||| ||||| | | || ||| ||| ||| | | | | | || ||| ||| | | || | | | | | | | | ||| | | | | |
ACATGATTTCCAGTTCTTCAACAACCAAAGGCTCAATGAATTGTATGAAAAGGAAGTCCGGTACCTTATGgtaatttcctagctaaaatgcttgtgtattgttttgctagatgttgagaaactagctcttggactccatgttgtgtctaatgtgccagtccgattaaatagcattgttcccgtactcagttaattgtttgccaattattattgataatcccaatgctaacttgagaaaaattattccag
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: AC235535.1_FGT001 (Zea mays), 5'ss of exon 18
GCATGATTTCCAATTCTTTAACACACAAAGGCTGAATGAGTTGTATGAGAAAGAAGTGCGGTACCTCATGgtgtgtaatctttcttgccatgtcttgctgctttggtgatccataacctactttgtatgcacactttattcatttttgtttctatttttttttttaaatttcacag--
|||||||||||| || || || | |||||||| ||||| ||||| || || |||||||||||||||||||| || | || | | | | || | | | | | || || | | || || | | |||||| | | ||| || | ||| |||
GCATGATTTCCAGTTTTTCAATAACCAAAGGCTAAATGAATTGTACGAAAAGGAAGTGCGGTACCTCATGgt-----atttctcatccaaattattattattgtaatttgcactagatattgaagtttcctcaacttctgctattttgtgtgtgtttgttgcct---gttttccagtc
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: GRMZM2G010085_T01 (Zea mays), 5'ss of exon 15
GCATGATTTCCAATTCTTTAACACACAAAGGCTGAATGAGTTGTATGAGAAAGAAGTGCGGTACCTCATGgtgtgtaatctttcttgcca-tgtcttgctgctttggtgatccataacctactttgtatgcac-actttattcatttttgtttctattttttttttt----aaatttcacag-------------------------------------------------------------------------------------
||||||||||| || || || | |||||||| ||||| |||||||| || |||||||||||||| ||||| | ||| | | | ||| ||| | || || | || | | ||| | | ||| ||||||| || || | |||| || | | |
ACATGATTTCCAGTTTTTCAATAACCAAAGGCTAAATGAATTGTATGAAAAGGAAGTGCGGTACCTTATGgta-attatcgtccagattactgttttggtatttctactggatatgaagtaactaatttgctccatttttgctttttttgtgcctgttgcctgttttggcagaacattagacattactttctcattattttgcaatatattgtttggcatctgtcactcgtaaccttggtggttaacattagaaaattttgatgcag
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: GLYMA15G10370.1 (Glycine max), 5'ss of exon 18
GCATGATTTCCAATTCTTTAACACACAAAGGCTGAATGAGTTGTATGAGAAAGAAGTGCGGTACCTCATGgt--gtgtaatcttt------cttgccatgtcttgctgctttggtgatccataacctactttgtatgcacac-tttattcatt-tttgtttctatttttttttttaaatttcacag
||||||||||||||| || |||||||||||| ||| |||| ||||||| || ||||| || || |||||||| |||||| | |||| | | ||| | | | | |||| | ||| || | ||| |||| | || || |||| | ||||| ||
GCATGATTTCCAATTTTTCAACACACAAAGGTTGAGTGAGCTGTATGAAAAGGAAGTACGCTATCTCATGgtaggtgtaagcaaaaaagaatttgctacagttcatgtttttagctttttagatttagctttagctcaacaaattggtatattgtttggtgcttattattttataaaattgcag--
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: GLYMA07G38050.2 (Glycine max), 5'ss of exon 18
GCATGATTTCCAATTCTTTAACACACAAAGGCTGAATGAGTTGTATGAGAAAGAAGTGCGGTACCTCATGgtgtgtaatctttcttgccatgtcttgctgctttggtgatccataacctactttgtatgcacactttattcatttttgtttctatttttttttttaaatttcacag
|||||| ||||| || || |||||||| ||||||| |||| ||||||| || ||||| || |||||||||||| |||| || ||| ||| || || | || || || || | ||| || | | | ||| | | | |||||| |||
GCATGACTTCCAGTTTTTCAACACACACAGGCTGAGTGAGCTGTATGAAAAGGAAGTTCGCTACCTCATGgtgggtaaccta---------aacttactgattaaacaattccaggtttagctt--attcaatgtgtatagatgct-gctgctaatatactgtttaaaaaaatcag
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: GLYMA17G02640.1 (Glycine max), 5'ss of exon 18
GCATGATTTCCAATTCTTTAACACACAAAGGCTGAATGAGTTGTATGAGAAAGAAGTGCGGTACCTCATGgtgtgtaatctttcttgccatgtcttgctgctttggtgatccataacctactttgtatgcacactttattcatttttgtttctatttttttttttaaatttcacag
|||||| ||||| || || |||||||| ||||||| |||| ||||||| || ||||| || ||||||||||| |||| || ||| ||| || || || || | | || | || | ||| | |||| ||| |||
GCATGACTTCCAGTTTTTCAACACACACAGGCTGAGTGAGCTGTATGAAAAGGAAGTTCGATACCTCATGgtaggtaaccta---------aacttactgattaaacaatttcaggtttagcttattca-atgtgataaatgctgctgctaatatgctgttttaaaaaaatcag--
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: AT5G18620.1 (Arabidopsis thaliana), 5'ss of exon 18
GCATGATTTCCAATTCTTTAACACACAAAGGCTGAATGAGTTGTATGAGAAAGAAGTGCGGTACCTCATGgtgtgtaatctttcttgccatgtcttgctgctttggtgatccataacctactttgtatgcacactttattcatttttgtttctattttttttt--ttaaatttcacag
||||||||| || |||||||||| || ||||||| |||| ||||||| ||||||||||| ||||| |||||| | | | || || | | | || | ||| || | | | ||| || | | | ||| ||| | |||||
GCATGATTTTCAGTTCTTTAACATTCAGAGGCTGACTGAGCTGTATGAAAAAGAAGTGCGATACCTTATGgtgggaa--------taacaagtttatcaac----atgttatgtaatttatgcagcttttgtgtctgattagttctgaatagcaatttgtttcactctggtttcag--Mapped 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|28967912|gb|CB346945.1|CB346945EST: ACACACAAAGGCTGAATGAGTTGTATGAGAAAGAAGTGCGGTACCTCATG CAAACACATCAAAAGAATCAGTTAAAAGACTCCATAGATGTGGATGAACCT
genomic: ACACACAAAGGCTGAATGAGTTGTATGAGAAAGAAGTGCGGTACCTCATGgtgtgtaatc ... aatttcacagCAAACACATCAAAAGAATCAGTTAAAAGACTCCATAGATGTGGATGAACCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCATGATTTCCAATTCTTTAACACACAAAGGCTGAATGAGTTGTATGAGAAAGAAGTGCGGTACCTCATGgtgtgtaatctttcttgccatgtcttgctgctttggtgatccataacctactttgtatgcacactttattcatttttgtttctatttttttttttaaatttcacag
- - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT