Sequence
atgc intronic sequence ATGC exonic sequence...aaccccctttttttacttctcattgtggttgtctatcatggtttgtcaatgtcctatttaaaatcacaattgatgttcggattcacttcgtgttttttagGTAATGATTGATTTTCAAGCAGCTGAAAAGCGAAGACTTGAAGAACCTGCTTCTGAAATTGGTCTGGAATCTTTATGTGCAATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0097g00670.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: LOC_Os02g51430.2 (Oryza sativa), 3'ss of exon 14
-------------aaccccctttttttacttctcattgtggttgtctatcatggtttgtcaatgtc-----ctatttaaaatcac--aattgatgttcggattcacttcgtgttttttagGTAATGATTGATTTTCAAGCAGCTGAAAAGCGAAGACTTGAAGAACCTGCTTCTGAAATTGGTCTGGAATCTTTATGTGCAATG
| ||| | | | | || || | | | | | |||| || | || | ||| | |||| || ||| | | | | | | ||||| ||| ||||||||||||||||||| | || ||||||||| ||||| |||||||| |||| |||||||| |||||||| ||
gtatttacacagttaacccttcatgatgatgttctttacatggttttgttacgctttgctgttgacatgaattactgaaagatgccaaattcatcttctttgtttcctt-tataatatagGTCATGCTTGATTTTCAAGCAGCTGAGAGGCAAAGACTTGAGGAACCAGCTTCTGATGTTGGCTTGGAATCTCTATGTGCATTG
upper sequence: Vv03s0097g00670.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GRMZM2G070045_T01 (Zea mays), 3'ss of exon 10
-----------------------aaccccctttttttacttctc-attgtggttgtc-tatcatggtttgtcaatgtcctattta---aaatcacaatt--gatgttcggattcacttcgtgttttttagGTAATGATTGATTTTCAAGCAGCTGAAAAGCGAAGACTTGAAGAACCTGCTTCTGAAATTGGTCTGGAATCTTTATGTGCAATG
|| | | | | || | || | |||| | | | | || || | | || | | || | ||| |||||| || | || || ||| |||| ||| ||||||||||||||||||| | || ||| ||||| || || |||||||| |||||||||||||| |||||||| ||
gtatttatatagttaccatatgaaattacgtgactatgtgagtctactgggtttgttgtgttacgcttca-cacttttgtaatcagttaatttgttatttagatgttttattttattt-gtcatttgcagGTCATGCTTGATTTTCAAGCAGCTGAGAGGCAAAGGCTTGAGGAGCCAGCTTCTGATGTTGGTCTGGAATCTCTATGTGCATTG
upper sequence: Vv03s0097g00670.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA03G03120.1 (Glycine max), 3'ss of exon 16
------aaccccctttttttacttctcattgtggttgtctatcatggtttgtcaatgtcctatttaaaatcacaattgatgttcggattcacttcgtgttttt-tagGTAATGATTGATTTTCAAGCAGCTGAAAAGCGAAGACTTGAAGAACCTGCTTCTGAAATTGGTCTGGAATCTTTATGTGCAATG
| || | | || ||||| | | | || || | | ||| | | | | || | || | ||| || ||||| |||| ||||||||||||||||||||||||||| ||||| |||||||| ||||||||||||||||||||| |||||||||| |||
tcactagaaatccatgaagtgctcctcatagcg------caatgtgtagtgcttactccttatatcgg-tagctttgtatcctaggttatactatgtatttttacagGTGATGATTGATTTTCAAGCAGCTGAAAAGAAGAGACTAGAAGAACCAGCTTCTGAAATTGGTCTGGAACCTTTATGTGCTATG
upper sequence: Vv03s0097g00670.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: AT1G71820.2 (Arabidopsis thaliana), 3'ss of exon 16
aaccccctttttttacttctcattgtggttgtctatcatggtttgtcaatgtcctatttaaaatcacaattgatgttcggattcacttcgtg---ttttttagGTAATGATTGATTTTCAAGCAGCTGAAAAGCGAAGACTTGAAGAACCTGCTTCTGAAATTGGTCTGGAATCTTTATGTGCAATG
||| |||| || ||| | | | | | | | || || | | | || || | | || |||||| | ||| | || |||| ||||||||||| ||||||||||||||| ||| |||| |||||||| ||||| |||||||||||| || |||| || |||
--ccctctttcattgtgtctaacttttat-acttcttaaatttcgtaacttttgtagcattgtgcatgttctaaattttgattcatattgtgaattacttcagGTTATGATTGATTTCCAAGCAGCTGAAAAGAAGAGAGTTGATGAACCTGCATCTGATATTGGTCTGGAACCTCTATGCGCTATGMapped 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|161712685|gb|FC062257.1|FC062257EST: AGAATAGCACTGATGTCATGCTATACAGAATTGCTTTGGCTGTCATTCAG GTAATGATTGATTTT
genomic: AGAATAGCACTGATGTCATGCTATACAGAATTGCTTTGGCTGTCATTCAGgtagattcag ... tgttttttagGTAATGATTGATTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaatgtcctatttaaaatcacaattgatgttcggattcacttcgtgttttttagGTAATGATTGATTTTCAAGCAGCTGAAAAGCGAAGACTTGAAGAACCTGCTTCTGAAATTGGTCTGGAATCTTTATGTGCAATG
aattgat putative branch site (score: 4)
tgtttttt putative PPT
tatttaaaatcacaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaccccctttttttacttctcattgtggttgtctatcatggtttgtcaatgtcctatttaaaatcacaattgatgttcggattcacttcgtgttttttagGTAATGATTGATTTTCAAGCAGCTGAAAAGCGAAGACTTGAAGAACCTGCTTCTGAAATTGGTCTGGAATCTTTATGTGCAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- ccccctt
- - - - - - - -cttctca
- - - - - - - - - - - - gtggttg
- - - - - - - - - - - - - - - - - - catggtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaatca