Sequence
atgc intronic sequence ATGC exonic sequence...tttttatttttttttccatattgcactgatcttatcttaaaaataatggtatgtgaaaatttctccttaacctcaagttgttcccatgaatcctctgcagGTGACATTTCACTATGTTGGCTATAATGAGTCAGGTCGCCGTATTGACAGCAGTTATATGCAGGGTTCTCCTGCCAAAATCCGGATGGGCACCAATGCAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0021g01850.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os07g30800.1 (Oryza sativa), 3'ss of exon 4
tttttattt--ttttttccatattgcactgatcttatcttaaaaataatggtatgtgaaaatttctccttaacctcaagttgttcccatgaatcc--tctgcagGTGACATTTCACTATGTTGGCTATAATGAGTCAGGTCGCCGTATTGACAGCAGTTATATGCAGGGTTCTCCTGCCAAAATCCGGATGGGCACCAATGCAC
|| | | | | || ||| | | | | || ||| | || | || | |||| | | | | || | | | || ||||| | |||||||||||| ||||| ||||||||||| ||| | || || |||| || || |||||||| ||||||||||| ||| | || | ||| |||
ttagaaatagatgtattatatagttgatttcttttgatttatcttttatagcatatc----tttccattgtatatggtgctgatttccttcatttgaataacagGTTATATTTCACTATGTGGGCTACAATGAGTCAGGGCGCAGGATAGATAGCACCTACATTCAGGGTTCACCTGCCAAAATTCGGTTAGGGAACAAAACAC
upper sequence: Vv15s0021g01850.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA07G14250.1 (Glycine max), 3'ss of exon 4
---tttttatttttttttccatattgcactgatcttatcttaaaaataatggtatgtgaaaatttctccttaacctcaagttgttcccatgaatcctctgcagGTGACATTTCACTATGTTGGCTATAATGAGTCAGGTCGCCGTATTGACAGCAGTTATATGCAGGGTTCTCCTGCCAAAATCCGGATGGGCACCAATGCAC
| ||||| | | | || | || | | || | || | | || | || ||| | | || ||||||| || ||||||||| ||||||||||||| || || || ||||||||||||| |||| ||||||||||||||||||||||||| ||||| ||||| | |
aactgcaaattttaggcactaggaataggcactacaatttaaagcttgactttaatacacaaataatactca---ctaatttgcttgtaatcatgtcttgcagGTTACGTTTCACTATATTGGCTATAATGAATCTGGACGTCGTATTGACAGCACTTATTTGCAGGGTTCTCCTGCCAAAATCCGCATGGGTACCAAGGGAT
upper sequence: Vv15s0021g01850.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA03G26680.1 (Glycine max), 3'ss of exon 4
--tttttatttttttttccatattgcactgatcttatcttaaaaa-taatggtatgtgaaaatttctccttaacctcaagttgttcccatgaatcctctgcagGTGACATTTCACTATGTTGGCTATAATGAGTCAGGTCGCCGTATTGACAGCAGTTATATGCAGGGTTCTCCTGCCAAAATCCGGATGGGCACCAATGCAC
| | | || | | | | | | ||||| | || || | || || | ||| || ||| | | | | ||||||| || ||||||||| ||||||||||||| || || || ||||||||||||| |||| |||||||| |||| ||||||||||| ||||||||||| | |
aactgcaactcttaggcactagtagtaggtactacaatttaaagcctgattttaatacacaaattatattta---ctaatttgcttgtaatcttgccttgcagGTTACTTTTCACTATATTGGCTATAATGAATCTGGCCGTCGTATTGACAGCACTTATTTGCAGGGTACTCCAGCCAAAATCCGTATGGGCACCAAGGGATMapped 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|110732182|gb|EE107246.1|EE107246EST: ATCGAGATTTTGAAGTTGGTAAAGGTGATTGCCCAAAGGCTGGTCAACAG GTGACATTTCACTATGTTGGCTATAATGAGTCAGGTCGCCGTATTGACAGC
genomic: ATCGAGATTTTGAAGTTGGTAAAGGTGATTGCCCAAAGGCTGGTCAACAGgtttttcttt ... tcctctgcagGTGACATTTCACTATGTTGGCTATAATGAGTCAGGTCGCCGTATTGACAGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggtatgtgaaaatttctccttaacctcaagttgttcccatgaatcctctgcagGTGACATTTCACTATGTTGGCTATAATGAGTCAGGTCGCCGTATTGACAGCAGTTATATGCAGGGTTCTCCTGCCAAAATCCGGATGGGCACCAATGCAC
ccttaac putative branch site (score: 3)
tcctctgc putative PPT
tgaaaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttatttttttttccatattgcactgatcttatcttaaaaataatggtatgtgaaaatttctccttaacctcaagttgttcccatgaatcctctgcagGTGACATTTCACTATGTTGGCTATAATGAGTCAGGTCGCCGTATTGACAGCAGTTATATGCAGGGTTCTCCTGCCAAAATCCGGATGGGCACCAATGCAC
- - - - - - - - - - - - - - - - - - - -aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - gtatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cccatga