Sequence
atgc intronic sequence ATGC exonic sequencegtaagttcctattatggactgagtcttaggtgtttatggatgatatattattgacttgattgcttgtcattatcatttggtagcctaacatgtttttttttttttttttttcaattattagTTTTTCAGATTCAAATAGAAGGCGATGCTCTGTTTTGCAGTGGAATCCTGATGTTGCCACTCAGCTAGTTGTTGCATCAGATGAAGACAATTCACCTGCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0158g00140.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os07g46370.1 (Oryza sativa), 3'ss of exon 5
gtaagttcctattatggactgagtcttaggtgtttatggatgatatattattgacttgattgcttgtcattatcatttggtagcctaacatgtttttttttttttttttttcaattattagTTTTTCAGATTCAAATAGAAGGCGATGCTCTGTTTTGCAGTGGAATCCTGATGTTGCCACTCAGCTAGTTGTTGCATCAGATGAAGACAATTCACCTGCC
|||| || || | | | || | |||| |||| | || || | ||| | | || ||| ||| | | |||||| ||| || |||||||||||||| |||| | |||||||||| | || ||||| ||||| | |||| |||||| |||||||||||||||| || || || || |
gtaa-ttgctttagccatccacattacttttgcactttcttgatctattccttgtgaaata--ctgatgtattcacctatt--tctgacactaaatttctctcgcttttttaaat----agCTTTTCAGATTCAAACAGAACGAAATGCTCTGTTCTTCAATGGAACCCTGACATGTCCACCCAGCTAATTGTTGCATCAGATGATGATAACTCTCCATCT
upper sequence: Vv13s0158g00140.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G334061_T01 (Zea mays), 3'ss of exon 6
gtaagttcctattatggactgagtcttaggtgtttatggatgatatattattgacttgattgcttgtcattatcatttggtagcctaacatgttttttttttt--ttttttttcaattatt----agTTTTTCAGATTCAAATAGAAGGCGATGCTCTGTTTTGCAGTGGAATCCTGATGTTGCCACTCAGCTAGTTGTTGCATCAGATGAAGACAATTCACCTGCC
|| ||| | | | | | |||| || || ||| || | || |||| ||| || || ||||| |||| || |||||||||||||||||| ||||| |||||||||| | ||||||||||| ||| | |||| ||| | |||||||||||||||| |||| ||| || |
-----------------------------gtaattacagtagttgctagagttacttatgcaatt-tcgagatctctttctgatacaatatgtgatttggattgattatttttgaattgttgatcagTTTTTCAGATTCAAATCGAAGGAAATGCTCTGTTCTCCAGTGGAATCCAGATATGTCCACCCAGTTGATTGTTGCATCAGATGATGACAGTTCTCCCTCA
upper sequence: Vv13s0158g00140.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G035985_T03 (Zea mays), 3'ss of exon 5
gtaagttcctattatggactgagtcttaggtgtttatggatgatatattattgacttgattgcttgtcattatcatttggtagcctaacatgttttttttttt--ttttttttcaattatt----agTTTTTCAGATTCAAATAGAAGGCGATGCTCTGTTTTGCAGTGGAATCCTGATGTTGCCACTCAGCTAGTTGTTGCATCAGATGAAGACAATTCACCTGCC
|| ||| | | | | | |||| || ||| ||| || | || |||| ||| || || |||| |||| || |||||||||||||||||||||||| ||||||||| | || |||||||| ||| | |||| ||||| ||||||||||||| || ||||| || || |
-----------------------------gtacttacagtagttgctggagttacttatgcattt-tcaggatctctttatgatacaatatgtggtttggattgattaattttgaattgttgaacagTTTTTCAGATTCAAATAGAAGGAAATGCTCTGTGCTTCAATGGAATCCAGATATGTCCACCCAGCTGATTGTTGCATCAGACGATGACAACTCTCCCTCA
upper sequence: Vv13s0158g00140.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G01290.1 (Glycine max), 3'ss of exon 5
gtaagttcctattatggactgagtcttaggtgtttatggatgatatattattgacttgattgcttgtcatt--atcatttggtagcctaacatgtttttttttttttttttttcaattattagTTTTTCAGATTCAAATAGAAGGCGATGCTCTGTTTTGCAGTGGAATCCTGATGTTGCCACTCAGCTAGTTGTTGCATCAGATGAAGACAATTCACCTGCC
| || | || | | || || ||| ||| || | | | ||| || | | | ||| | || | || ||| ||||||| ||||||||| || |||||||||||||||||||||||||||||||| || ||||| ||||||||||||||||||| || ||| |
----------------------------gttgctcatcttttgccttttgtttttgaagaaatttggtattctattacctaaaaaaataattataaccttatatatcatttgtgaactggcagCTTTGCAGATTCGGTTAGAAGGCGGTGTTCTGTTTTGCAGTGGAATCCTGATGTTGCCACACAACTAGTCGTTGCATCAGATGAAGACAGCTCTCCTTCT
upper sequence: Vv13s0158g00140.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G36050.2 (Glycine max), 3'ss of exon 5
gtaagttcctattatggactgagtcttaggtgtttatggatgatatattattg-acttgattgcttgtcatt--atcatttggtagcctaacatgtttttttttttttttttttcaattattagTTTTTCAGATTCAAATAGAAGGCGATGCTCTGTTTTGCAGTGGAATCCTGATGTTGCCACTCAGCTAGTTGTTGCATCAGATGAAGACAATTCACCTGCC
| ||| | || | || | | || || || | ||| ||| || | | | ||| || | | | ||| | || | || ||| ||||||| ||||||||| || |||||||||||||||||||||||||||||||| || || ||||||||||||||||||||| || ||| |
--------------------gtaacttggttgctcatcttttgccttttgttttggaagaaagtttggtattctattacctaaaaaaataattataaccttatatatcatttgtgaactggcagCTTTGCAGATTCGGTTAGAAGGCGGTGTTCTGTTTTGCAGTGGAATCCTGATGTTGCCACACAACTTGTTGTTGCATCAGATGAAGACGGCTCTCCTTCT
upper sequence: Vv13s0158g00140.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G63460.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaagttcctattatggactgagtcttaggtgtttatggatgatatattat-tgacttgattgcttgtcattatcatttggtagcctaacatgtttttttttttttttttttcaattattagTTTTTCAGATTCAAATAGAAGGCGATGCTCTGTTTTGCAGTGGAATCCTGATGTTGCCACTCAGCTAGTTGTTGCATCAGATGAAGACAATTCACCTGCC
|| | || ||||| ||| | |||| || | | | || | | || | || | | || ||| | | || ||| |||||||| | || | || ||||||||||| |||||||| ||| | ||| | |||||| || | |||||||||||||| |||| ||||||| |
-------------------------------gtaagtattcaatttattaagtgatattattgaggctctcgaaaaacttgttgtcaaa----tccttgatctcgccattatcattcaacagCTTTGCAGATTCAGTTCGACGCCGGTGCTCTGTTTTACAGTGGAACCCTAACGTTACTACTCAGATAATGGTTGCATCAGATGACGACAGTTCACCTACTMapped 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|34544619|gb|CF512851.1|CF512851EST: TGGTTTGGGACTTAAAGAAGCAAAAGCCAGTGAGAAG TTTTTCAGATTCAAATAGAAGGCGATGCTCTGTTTTGCAGTGGAATCCTGA
genomic: TGGTTTGGGACTTAAAGAAGCAAAAGCCAGTGATAAGgtaagttcct ... caattattagTTTTTCAGATTCAAATAGAAGGCGATGCTCTGTTTTGCAGTGGAATCCTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcattatcatttggtagcctaacatgtttttttttttttttttttcaattattagTTTTTCAGATTCAAATAGAAGGCGATGCTCTGTTTTGCAGTGGAATCCTGATGTTGCCACTCAGCTAGTTGTTGCATCAGATGAAGACAATTCACCTGCC
gcctaac putative branch site (score: 2)
cctaacatgttttttt CT-rich tract
taacatgttttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttcctattatggactgagtcttaggtgtttatggatgatatattattgacttgattgcttgtcattatcatttggtagcctaacatgtttttttttttttttttttcaattattagTTTTTCAGATTCAAATAGAAGGCGATGCTCTGTTTTGCAGTGGAATCCTGATGTTGCCACTCAGCTAGTTGTTGCATCAGATGAAGACAATTCACCTGCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA