Sequence
atgc intronic sequence ATGC exonic sequence...gatgattaattattaccctaactatttatcatttactttacttccttttaaacatggagtttatttgcccatttgggcacgtttgtggctcatcctgcagAGCTGGGAGAAGACAATGGACTGTCATAGTCCTGGTCAAGGGTTGATGCCTGCAAGTTTCAAGGTGCGCACAGTTCCCCTGGATGGTGATGACTCTGCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0074g00720.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os04g33490.1 (Oryza sativa), 3'ss of exon 1
----gatgattaattattaccctaactatttatcatttactttacttccttttaaacatggagtttatttgcccatttgggcacgtttgtggctcatcctgcagAGCTGGGAGAAGACAATGGACTGTCATAGTCCTGGTCAAGGGTTGATGCCTGCAAGTTTCAAGGTGCGCACAGTTCCCCTGGATGGTGATGACTCTGCAA
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attgtgtttctaagcaccttcttgcttaaataagtcatgtgtttccaatatttaaatctggagatcttcttctc--ttaaatctgattgttaa-catc-tgcagAGCTGGGAGAAAACGATGGACTGCCACAGTCCAGGTCAAGGGTTGATGCCAGCAAGTTTCAAGGTGCGTGTTGTTCCACTTGACGGGGACGATGATGTAA
upper sequence: Vv13s0074g00720.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g32730.1 (Oryza sativa), 3'ss of exon 2
-gatgattaattattaccctaactatttatcatttactttacttccttttaaacatggagtttatttgcccatttgggcacgtttgtggctcatcctgcagAGCTGGGAGAAGACAATGGACTGTCATAGTCCTGGTCAAGGGTTGATGCCTGCAAGTTTCAAGGTGCGCACAGTTCCCCTGGATGGTGATGACTCTGCAA
| || | || | ||| ||| | | | | ||| | | | | | | | | | | || ||||||||||||||||||||||||| |||||||| || || || || |||||||| || ||||||||||| ||| |||| || ||||| ||||| |||||
aagttcttggcaaatatctcttctagttaccgtagcaacaaaatgaatttgtatgccctatccaag-gtgtaacaagttctgctgtcattttgttatgtagAGCTGGGAGAAGACAATGGACTGCCATAGTCCAGGACAGGGCTTAATGCCTGCTAGCTTCAAGGTGCGAACAATTCCACTCGATGGAGATGAAGATGCAA
upper sequence: Vv13s0074g00720.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G040843_T01 (Zea mays), 3'ss of exon 2
gatgattaattattaccctaactatttatcatttactttacttccttttaaacatggagttt-atttgcccatttgggcacgtttgtggctcatcctgcagAGCTGGGAGAAGACAATGGACTGTCATAGTCCTGGTCAAGGGTTGATGCCTGCAAGTTTCAAGGTGCGCACAGTTCCCCTGGATGGTGATGACTCTGCAA
| || | | || || | | | || | || | | || || | || || | |||| || ||| |||||||||| || ||||||||||| |||||||| |||||||| || ||||| || || ||||| ||||| ||| |||| || ||||||||||| |||||
taaagctacaaaat-cctgaatcaccactaaattgagtgacatgtcctgaatgattcccctggatctgacagtttgtctgacaccttgagctggtctgtagAGCTGGGAAAAAACAATGGACTGCCATAGTCCAGGTCAAGGTTTAATGCCCGCCAGCTTCAAAGTGCGGACAATTCCACTTGATGGTGATGAGGATGCAA
upper sequence: Vv13s0074g00720.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G31920.1 (Glycine max), 3'ss of exon 1
gatgattaattattaccctaactatttatcatttactttacttccttttaaacatggagtttatttgcccatttgggcacgtttgtg---gctcatcctgcagAGCTGGGAGAAGACAATGGACTGTCATAGTCCTGGTCAAGGGTTGATGCCTGCAAGTTTCAAGGTGCGCACAGTTCCCCTGGATGGTGATGACTCTGCAA
|| | |||| || || | || | || ||| ||| || ||| | ||| || || | | | | | ||| | |||||||||||||| || ||||| ||||||||||| || ||||| ||||||||||| ||||| ||||| | |||||||| ||||||||||||| |||||||
cattagtaatcttt-ttttagcacttctt--ttgccttaactgtattataattactttgttgtttctgatatattgtcttgaatccacacatccatatttcagAGCTGGGAGAAAACTATGGATTGTCATAGTCCAGGACAAGGTTTGATGCCTGCTAGTTTTAAGGTTAGGACAGTTCCTTTGGATGGTGATGATTCTGCAA
upper sequence: Vv13s0074g00720.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G15220.1 (Glycine max), 3'ss of exon 2
----gatgattaattattaccctaactatttatcatttactttact-tccttttaaacatggagtttatttgcccatttgggcacgtttgtggctcatcctgcagAGCTGGGAGAAGACAATGGACTGTCATAGTCCTGGTCAAGGGTTGATGCCTGCAAGTTTCAAGGTGCGCACAGTTCCCCTGGATGGTGATGACTCTGCAA
| ||| || ||||| | | ||| | || ||| || | | || | || | || | | ||| | | | ||| | |||||||||||||| |||||||| ||||||||||| || ||||| ||||||||||| ||||| ||||| | |||||||| |||| |||||||| |||||||
cattagtaatttttttttacc--acttcttttgccttaactgtattataattactttcttgtttctgatatactgtcttgaacccacacat---ccatatttcagAGCTGGGAGAAAACAATGGATTGTCATAGTCCAGGACAAGGTTTGATGCCTGCTAGTTTTAAGGTTAGGACAGTTCCTTTGGACGGTGATGATTCTGCAA
upper sequence: Vv13s0074g00720.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S15_44V6.1 (Physcomitrella patens), 3'ss of exon 2
-gatgattaattattaccctaactatttatcatttactttacttcc-ttttaaacatggagtttatttgcccatttgggcacgtttgtggctcatcctgcagAGCTGGGAGAAGACAATGGACTGTCATAGTCCTGGTCAAGGGTTGATGCCTGCAAGTTTCAAGGTGCGCACAGTTCCCCTGGATGGTGATGACTCTGCAA
| || | || ||||| | | | | | | | |||||| || || | ||| | | | | | | ||||||||||||||||| | |||||| || | || || ||||| |||||||| |||||||| ||||| || || || || ||||| || || | |
ttttaataggcttctattataactgtgtcttactagcagactatgtgttttaatcaaagaatggattg--tcgtgctaattaatatagcctatgttcaatagAGCTGGGAGAAGACAGTAGACTGTTATTGCCCGGGACAAGGATTGATGCCAGCAAGTTTTAAGGTCCGAACTGTGTATCTCGATGGCGACGAAACCAAAGMapped 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|110732966|gb|EE108716.1|EE108716EST: ACTTCATCCTTCACACACTTCAGTTGCAG AGCTGGGAGAAGACAATGGACTGTCATAGTCCTGGTCAAGGGTTGATGCCT
genomic: ACTTCATCCTTCACACACTTCAGTTGCAGgtaatttaac ... catcctgcagAGCTGGGAGAAGACAATGGACTGTCATAGTCCTGGTCAAGGGTTGATGCCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttaaacatggagtttatttgcccatttgggcacgtttgtggctcatcctgcagAGCTGGGAGAAGACAATGGACTGTCATAGTCCTGGTCAAGGGTTGATGCCTGCAAGTTTCAAGGTGCGCACAGTTCCCCTGGATGGTGATGACTCTGCAA
ctcatcct CT-rich tract
agtttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatgattaattattaccctaactatttatcatttactttacttccttttaaacatggagtttatttgcccatttgggcacgtttgtggctcatcctgcagAGCTGGGAGAAGACAATGGACTGTCATAGTCCTGGTCAAGGGTTGATGCCTGCAAGTTTCAAGGTGCGCACAGTTCCCCTGGATGGTGATGACTCTGCAA
- - - - - - - -ccctaac
- - - - - - - - - - - - - - -catttac
- - - - - - - - - - - - - - - - - - - - - - - - - - catggag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgccca