Sequence
atgc intronic sequence ATGC exonic sequence...aaaacacaatagattttttcctatgtattaataaaagatatgcacagaaatttgtttcgacttatttgacattctccattttcttcattgtattcttcagAGACTTAAAAGCTGAGAATCTTCTATTGGGCCCTGATGGATTATGGAAGTTGTGTGATTTTGGAAGCACCTCCACCAATCATAAGCGCTTTGAGAAGCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0156g00640.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G42460.1 (Glycine max), 3'ss of exon 3
aaaacacaatagattttttcctatgtattaataaaagatatgcacagaaatttgtttcgacttatttgacattctccattttcttcattgtattcttcagAGACTTAAAAGCTGAGAATCTTCTATTGGGCCCTGATGGATTATGGAAGTTGTGTGATTTTGGAAGCACCTCCACCAATCATAAGCGCTTTGAGAAGCCT
| | | ||| || || || | | || | | | ||| || | | | ||| || ||| || ||| || | |||||||| ||||| ||||||||| |||| || | ||||| ||||||||||| ||||||||||||||||| ||||||||||| || || |||||||||||
attatgttctgtttttcttaagatctaatttttttcataatataaggtactttattattaataaattgttttttctttcttttctctctgtgttttctagAGACTTGAAAGCAGAGAATCTTTTATTAGGTTCAGATGGCTTATGGAAGTTATGTGATTTTGGAAGCACTTCCACCAATCACAAACGTTTTGAGAAGCCA
upper sequence: Vv13s0156g00640.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G15920.1 (Glycine max), 3'ss of exon 3
----aaaacacaatagattttttcctatgtattaataaaagatatgcacagaaatttgtttcgacttatttgacattctccattttcttcattgtattcttcagAGACTTAAAAGCTGAGAATCTTCTATTGGGCCCTGATGGATTATGGAAGTTGTGTGATTTTGGAAGCACCTCCACCAATCATAAGCGCTTTGAGAAGCCT
||| || || || | || | | | | | ||| ||| ||||| | | || |||||| || |||| || |||||||| ||||| ||||||||| |||| || | ||||| ||||||||||| ||||||||||||||||| ||||||||||| || || ||||| |||||
tcttttgacatcattgaaaaattatgacaaatcagatggaagcctataaggtgctttcttta---ttatt-aatttcttctattttcctctttgtgtttcctagAGACTTGAAAGCAGAGAATCTTTTATTAGGTTCAGATGGCTTATGGAAGTTATGTGATTTTGGAAGCACTTCCACCAATCACAAACGTTTTGAAAAGCCA
upper sequence: Vv13s0156g00640.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT2G32850.2 (Arabidopsis thaliana), 3'ss of exon 2
aaaacacaatagattttttcctatgtattaataaaagatatgcacagaaatttgtttcgacttatttgacattctccattttcttcattgtattcttcagAGACTTAAAAGCTGAGAATCTTCTATTGGGCCCTGATGGATTATGGAAGTTGTGTGATTTTGGAAGCACCTCCACCAATCATAAGCGCTTTGAGAAGCCT
| | | | | || || | || | | | || | | | || || | || | | | || | || || ||||||||| || |||||||||||||||||| || | |||||| |||||| |||||||||||||||||| || || ||||| ||| ||||| | |
---gtatacatgttgtattattagat-ttcgtttcgtttttacattagcaagcgatgtgaattgat--actgtattggtgttgctaatcgtga----cagAGACTTGAAGGCTGAGAATCTTCTATTGAGCTCAGATGGACAATGGAAATTGTGTGATTTTGGAAGCGTTTCGACAAATCACAAGATTTTTGAAAGAGCAMapped 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|29786212|gb|CB343818.2|CB343818EST: ATCCCCACCCATAGCTCACAG AGACTTAAAAGCTGAGAATCTTCTATTGGGCCCTGATGGATTATGGAAGAT
genomic: ATCCCCACCCATAGCTCACAGgtaagacact ... tattcttcagAGACTTAAAAGCTGAGAATCTTCTATTGGGCCCTGATGGATTATGGAAGTT
EST:
gi|71862099|gb|DT011154.1|DT011154EST: TGCAATGCGGTTTTTGCCATGCACTGCCAATCCCCACCCATAGCTCACAG AGACTTAAAAGCTGAGAATCTTCTATTGGGCCCTGATGGATTATGGAAGTT
genomic: TGCAATGCGGTTTTTGCCATGCACTGCCAATCCCCACCCATAGCTCACAGgtaagacact ... tattcttcagAGACTTAAAAGCTGAGAATCTTCTATTGGGCCCTGATGGATTATGGAAGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agaaatttgtttcgacttatttgacattctccattttcttcattgtattcttcagAGACTTAAAAGCTGAGAATCTTCTATTGGGCCCTGATGGATTATGGAAGTTGTGTGATTTTGGAAGCACCTCCACCAATCATAAGCGCTTTGAGAAGCCT
atttgac putative branch site (score: 4)
ttctccattttcttca CT-rich tract
acttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaacacaatagattttttcctatgtattaataaaagatatgcacagaaatttgtttcgacttatttgacattctccattttcttcattgtattcttcagAGACTTAAAAGCTGAGAATCTTCTATTGGGCCCTGATGGATTATGGAAGTTGTGTGATTTTGGAAGCACCTCCACCAATCATAAGCGCTTTGAGAAGCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
aaaacac
- - - - - - - - - -cctatgt
- - - - - - - - - - - - - - -aataaaa
- - - - - - - - - - - - - - - - - - gatatgc
- - - - - - - - - - - - - - - - - - - - - -acagaaa