Sequence
atgc intronic sequence ATGC exonic sequence...aggactagcttcttgacaatgtgatgatcatttattgtggatttattctttcaatgtatttccgtattggtttatgattgttttccttaacatctttcagTATTTAACAGCTGTGATGTTTTACGACCTTATGTTGCTCACATAGATGATATTTTTAAGGACTTCACTTCCTACAAGGTTCGAGTACCTGTAACTGGGGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g04310.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G27200.1 (Glycine max), 3'ss of exon 2
---aggacta--gcttcttgacaatgtgatgatcatttattgtggatttattctttcaatgt--atttccgtattggtttatgattgttttccttaacatctttcagTATTTAACAGCTGTGATGTTTTACGACCTTATGTTGCTCACATAGATGATATTTTTAAGGACTTCACTTCCTACAAGGTTCGAGTACCTGTAACTGGGGC
|||| ||| || || | || |||| ||| || ||| || || | |||| |||| | | ||| ||||||||||| | |||| || || |||||||||||||| | |||||||| || || |||||||||||||| ||||||||||||||||| ||||||||||| ||||||||||||||
acctaaactaaagctactcatcatggcagtg--tgtttac-atggtcatactctatccatatcaatttatatattagat----gctgtcttccttaacatatagcagTGTTCAATAGCTGTGATGTTTTTCAGCCTTATGTGGCCCATATAGATGATATTTTCAAGGACTTCACTTCCTATAAGGTTCGAGTTCCTGTAACTGGGGC
upper sequence: Vv13s0019g04310.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G08170.1 (Glycine max), 3'ss of exon 2
---aggactagcttcttgacaatgtgatgatcatttattgtggatttattctttcaatgtatttccgtattggtttatgattgttttccttaacatctttcagTATTTAACAGCTGTGATGTTTTACGACCTTATGTTGCTCACATAGATGATATTTTTAAGGACTTCACTTCCTACAAGGTTCGAGTACCTGTAACTGGGGC
| |||| || || | || |||| | ||| || ||| | ||| ||| || ||||||||||||||| | |||| || || |||||||||||||| |||||||| || || |||||||||||||| ||||||||||||||||| ||||||||||| ||||||||||||||
ctaaaataaagctactcatcatggcagtg--tattt-tcatggtcatactctctatccatatcaatttatatattagatgctgttttccttaacatttagcagTGTTCAATAGCTGTGATGTTTTGAAGCCTTATGTGGCCCATATAGATGATATTTTCAAGGACTTCACTTCCTATAAGGTTCGAGTTCCTGTAACTGGGGC
upper sequence: Vv13s0019g04310.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G13570.2 (Arabidopsis thaliana), 3'ss of exon 2
--------------------------------------------------------------------------------aggactagcttcttga-----caatgtgatgatcatttat--------tgtggatttattctttcaatgtatttccgtattggtttat---gattgttttccttaacat--ctttcagTATTTAACAGCTGTGATGTTTTACGACCTTATGTTGCTCACATAGATGATATTTTTAAGGACTTCACTTCCTACAAGGTTCGAGTACCTGTAACTGGGGC
||||||| ||| | | | || |||| | | || | | || ||| ||| | |||| ||| | ||| |||||||| || | | | |||||| |||||||||||||| || ||||||||||| ||||||| |||||||| ||||| ||||||||||| |||||| |||||| || || ||||||||
gtatccttcattgccttctgattcattattctgtgttcaatttcttgtcttcactgtttagtacaatgctcgttaatgataggactatgatctcatatgctcgaagcataaatgatttgtgtttgccacatagactgggcttctctttgtcttttc-cattgttttctgtggatatttttccttgacgtggcctatagTATTCAACAGCTGTGATGTGTTGAGACCTTATGTTACTCACATTGATGATATCTTTAAAGACTTCACTTCTTACAAGTGTCGAGTTCCAGTCACTGGGGCMapped 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|110366533|gb|EC930443.1|EC930443EST: NNNNNNTCCGTCGCTGAAGTCCTTCAATTTAAAAGAATTTACCTCTTTAT TATTTAACAGCTGTGATGTTTTACGACCTTATGTTGCTCACATAGATGATA
genomic: AAAAAATCCGTCGCTGAAGTCCTTCAATTTAAAAGAATTTACCTCTTTATgtatcctatt ... catctttcagTATTTAACAGCTGTGATGTTTTACGACCTTATGTTGCTCACATAGATGATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctttcaatgtatttccgtattggtttatgattgttttccttaacatctttcagTATTTAACAGCTGTGATGTTTTACGACCTTATGTTGCTCACATAGATGATATTTTTAAGGACTTCACTTCCTACAAGGTTCGAGTACCTGTAACTGGGGC
ttccttaac putative branch site
catctttc CT-rich tract
tttatgattgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aggactagcttcttgacaatgtgatgatcatttattgtggatttattctttcaatgtatttccgtattggtttatgattgttttccttaacatctttcagTATTTAACAGCTGTGATGTTTTACGACCTTATGTTGCTCACATAGATGATATTTTTAAGGACTTCACTTCCTACAAGGTTCGAGTACCTGTAACTGGGGC
- - - - cttcttg
- - - - - - - - caatgtg
- - - - - - - - - - - - - - - - - ttgtgga