Sequence
atgc intronic sequence ATGC exonic sequence...ataaaacaattgttttgatgttcatctgttgctgcccctgcctcttcatgctattttttattttgatatctatatatttaactttggctgtttttctcagTCCTCAGTGCTGCATTCACAACCAAAATCGACTGTTGGAACCCCTGCATACATTGCTCCTGAAGTCTTACTTAAGAAAGAATATGACGGGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0063g01080.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os03g55600.1 (Oryza sativa), 3'ss of exon 5
ataaaacaattgttttgatgttcatctgttgctgcccctgcctcttcatgctattt--tttattttgatatctatatatttaactttggctgtttttctcagTCCTCAGTGCTGCATTCACAACCAAAATCGACTGTTGGAACCCCTGCATACATTGCTCCTGAAGTCTTACTTAAGAAAGAATATGACGGGAAG
|||| | | | | | || | ||| | | | | | ||| | |||| | | ||| | || | || |||| ||||| ||||| || ||||||||||||||||| ||||| ||||||||||| || ||||| |||||||| | | ||||||||||| || || |||
-taaatttcatttgcttacaatacactat-actggcattactttaggacattatctggtttactctaataagcaaatgataaaagacaatctttttctgcagTCTTCAGTTCTCCATTCACAACCAAAATCCACTGTAGGAACCCCTGCTTATATTGCACCTGAAGTTCTGTTGAAGAAAGAATACGATGGCAAG
upper sequence: Vv03s0063g01080.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os12g39630.1 (Oryza sativa), 3'ss of exon 5
-----ataaaacaattgttttgatgttcatctgttgctgcccctgcctcttcatgctattttttattttgatatctatatatt-taactttggctgtttttctcagTCCTCAGTGCTGCATTCACAACCAAAATCGACTGTTGGAACCCCTGCATACATTGCTCCTGAAGTCTTACTTAAGAAAGAATATGACGGGAAG
| | | | | | || | ||| | ||| ||| ||| | | |||| | || | | |||| ||| |||| ||||| || || || ||||||||||||||||| || |||||||| || || || |||||||| ||||| || || ||||||||||| || || |||
actttctgtagtagtgaaaagaagagagaactttcgctagattt--ttctcgatgtgattgct-gcctggataatattgtactgttgcttt--ctgattttg-cagTCATCGGTTCTTCATTCACAACCAAAATCAACAGTTGGAACTCCAGCTTATATTGCTCCAGAAGTTTTGCTCAAGAAAGAATACGATGGAAAG
upper sequence: Vv03s0063g01080.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os03g41460.1 (Oryza sativa), 3'ss of exon 3
ataaaacaattgttttgatgttcatctgttgctgcccctgcctcttcatgctatttt----ttattttgatatctatatatttaactttggctgtttttctcagTCCTCAGTGCTGCATTCACAACCAAAATCGACTGTTGGAACCCCTGCATACATTGCTCCTGAAGTCTTACTTAAGAAAGAATATGACGGGAAG
|| ||| ||| | | || | | | || || | || |||| ||||| |||| || | ||| || ||| |||||| || || || ||||| ||||||||||| ||||||||||| || |||||||| |||||||| || | || ||||| |||||||| || |||
-ctgtgcatgtgtcttgtt--tagcctttcggggaatttgtgcctggaatcttttttaactttattctgatcatgtcatgactttttttt-cttcatttgtcagTCGTCTGTTCTTCATTCGCAACCAAAATCTACTGTTGGAACTCCGGCATACATCGCTCCTGAGGTTCTGCTGAAGAAGGAATATGATGGAAAG
upper sequence: Vv03s0063g01080.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G01240.1 (Glycine max), 3'ss of exon 5
ataaaacaattgttttgatgttcatct---gttgctgcccctgcc-tcttcatgctattttttattt-tgatatctatatatttaactttggctgtttttct----cagTCCTCAGTGCTGCATTCACAACCAAAATCGACTGTTGGAACCCCTGCATACATTGCTCCTGAAGTCTTACTTAAGAAAGAATATGACGGGAAG
|| | || || || |||| | || | | || | || |||| | |||||| | || ||| |||| || || |||||||| ||||| ||||||||||| ||||| |||||||| |||||||||||||||||||||||||| || |||||||| ||||||||||| |||
---------tttatctgtcctttgcctttggttgattaatttgtaatatctgtgacacaattaatttgtaatatctgtgacacaaatcttgactgtcttacttttgcagTCCTCTGTGCTACATTCACAACCTAAATCTACTGTTGGTACCCCTGCATACATTGCTCCTGAAGTTTTGCTTAAGAAGGAATATGACGGCAAG
upper sequence: Vv03s0063g01080.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G33120.1 (Glycine max), 3'ss of exon 5
ataaaacaattgttttgatgttca---tctgttgctgcccctgcctcttcatgctattttttattttgatatctatatattta---actttggctgtttttctcagTCCTCAGTGCTGCATTCACAACCAAAATCGACTGTTGGAACCCCTGCATACATTGCTCCTGAAGTCTTACTTAAGAAAGAATATGACGGGAAG
| | | | |||| || || | | || | | | | | || || | ||| || || ||| ||| ||| ||||||||||||||| ||||||||||||||||| || ||||| ||||||||||| |||||||| ||||| || |||||||| |||||||| || |||
------taggtttctccatgtccaagatcaagaaatttttttatctgtcatttgttgataacgtattaatttgctgatacctatgcaccttgattgtctttttcagTCCTCAGTGCTACATTCACAACCAAAATCTACAGTTGGTACCCCTGCATATATTGCTCCAGAAGTTTTGCTTAAGAAGGAATATGATGGCAAG
upper sequence: Vv03s0063g01080.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G29500.1 (Glycine max), 3'ss of exon 5
-ataaaacaattgttttgatgttcatctgttgctgcccctgcctcttcatgctattttttattttgatatctatatatttaactttggctgtttttct----cagTCCTCAGTGCTGCATTCACAACCAAAATCGACTGTTGGAACCCCTGCATACATTGCTCCTGAAGTCTTACTTAAGAAAGAATATGACGGGAAG
|| ||| || || | ||| || || | | || || | ||| | |||||| | || ||| |||| || || |||||||| ||||| ||||||||||| ||||| || || || |||||||||||||||||||||||||| || |||||||| ||||||||||| |||
tttactccaagatcaagaatatttctttgta--tgtcctttgcctttggtggattaatttgt---aatatctgtgacacaaatcttgactgtcttacttttgcagTCCTCCGTGCTACATTCACAACCTAAATCTACAGTCGGTACCCCTGCATACATTGCTCCTGAAGTTTTGCTTAAGAAGGAATATGACGGCAAG
upper sequence: Vv03s0063g01080.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G15330.1 (Glycine max), 3'ss of exon 5
ataaaacaatt-gttttgatgttcatctg---ttgctgcccctgcctcttcatgctattttttattttgatatctatatatttaactttggctgtttttctcagTCCTCAGTGCTGCATTCACAACCAAAATCGACTGTTGGAACCCCTGCATACATTGCTCCTGAAGTCTTACTTAAGAAAGAATATGACGGGAAG
|| | | | | | ||| || | | | | | | ||| |||| || ||| || ||| ||| ||| |||||| |||||||| ||||||||||||||||| || ||||| ||||||||||| || ||||| ||||| || |||||||| |||||||| || |||
-taggtttctccatgtccaagatcaagcaaatttttttatctgaaatttgtagataacggattagtttgcaatacctatgc---accttgattgtatttttcagTCTTCAGTGCTACATTCACAACCAAAATCTACAGTTGGTACCCCTGCATATATCGCTCCAGAAGTTTTGCTTAAGAAGGAATATGATGGCAAG
upper sequence: Vv03s0063g01080.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G33950.1 (Arabidopsis thaliana), 3'ss of exon 5
ataaaacaattgttttgatgttcatctgttgctgcccctgcctcttcatgctattttttattttgatatctatatatttaactttggctgtttttctcagTCCTCAGTGCTGCATTCACAACCAAAATCGACTGTTGGAACCCCTGCATACATTGCTCCTGAAGTCTTACTTAAGAAAGAATATGACGGGAAG
|| | || | | || | || || ||| | | | || | | ||| | ||| |||||| |||||| | ||||| ||||||||||| ||||||||||| ||||| ||||| |||||||| || ||||| |||||||||||||| || |||
-------------------gtatctttgaaaacatttcagaaactctgagttagttagtatctcta-agctttgtgttt-----------tctttttcagTCATCAGTGTTACATTCGCAACCAAAATCAACTGTTGGAACTCCTGCTTACATCGCTCCTGAGGTTTTACTAAAGAAAGAATATGATGGAAAGMapped 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|71872877|gb|DT021932.1|DT021932EST: ATGGAAGCTCAGCTCCTCGTTTGAAGATTTGTGACTTTGGGTACTCCAAG TCCTCAGTGCTGCATTCACAACCAAAATCAACTGTTGGAACCCCTGCATAC
genomic: ATGGAAGCCCAGCTCCTCGTTTGAAGATTTGTGACTTTGGGTACTCCAAGgtacttagtt ... tttttctcagTCCTCAGTGCTGCATTCACAACCAAAATCGACTGTTGGAACCCCTGCATAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatgctattttttattttgatatctatatatttaactttggctgtttttctcagTCCTCAGTGCTGCATTCACAACCAAAATCGACTGTTGGAACCCCTGCATACATTGCTCCTGAAGTCTTACTTAAGAAAGAATATGACGGGAAG
atttaac putative branch site (score: 3)
ctgtttttctc putative PPT
tattttttattttgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ataaaacaattgttttgatgttcatctgttgctgcccctgcctcttcatgctattttttattttgatatctatatatttaactttggctgtttttctcagTCCTCAGTGCTGCATTCACAACCAAAATCGACTGTTGGAACCCCTGCATACATTGCTCCTGAAGTCTTACTTAAGAAAGAATATGACGGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- aaaacaa
- - - - - - - - - - - - - tgttgct
- - - - - - - - - - - - - - - - - -ccctgcc
- - - - - - - - - - - - - - - - - - - - - -cttcatg