Sequence
atgc intronic sequence ATGC exonic sequence...aaaccaatggaaattttaagtaaatggaatttcttatttaaaaccacttctaagattatgatgtattggtggcttaatgttgctttgatgtggatggcagGAAACCCCAGGGTAACACCTGAAGTTACAAGGGATGTATGCTTATTGGCCAGAATGATGGCTGCTAACTTGTATTATTCTCAGATAGAGGACCTTATGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0028g02180.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g55350.1 (Oryza sativa), 3'ss of exon 6
aaaccaatggaaattttaagtaaatggaatttcttatttaaaac-cacttctaagattatgatgtattggtggcttaatgttgctttgatgtggatggcagGAAACCCCAGGGTAACACCTGAAGTTACAAGGGATGTATGCTTATTGGCCAGAATGATGGCTGCTAACTTGTATTATTCTCAGATAGAGGACCTTATGTT
|| ||| | || || || | ||| ||| | || ||| ||| | |||| ||||| ||| ||||||| ||||||| || || || ||||| || ||||||||||| |||||| | || || |||||||||||||||||||| || ||| | ||||||||||| || |||||
----------gtatgttacatctatc--atatcatgtttgcaacatagttaattaattgtgaaattatggt--tttaatattg-----atgtggactacagGAAATCCAAGAGTCACACCAGAGGTTACAAGGGACGTATGCCTGTTAGCTAGAATGATGGCTGCTAACTTATACTATGCACAGATAGAGGATCTGATGTT
upper sequence: Vv12s0028g02180.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os09g14670.1 (Oryza sativa), 3'ss of exon 4
--------------------------------------------------------aaaccaatggaaattttaagtaaatggaatttcttatttaaaaccacttctaagattatgatgtattggtg-gcttaatgttgctttgatgtggatggcagGAAACCCCAGGGTAACACCTGAAGTTACAAGGGATGTATGCTTATTGGCCAGAATGATGGCTGCTAACTTGTATTATTCTCAGATAGAGGACCTTATGTT
| | || ||| | || ||| | | | | ||| ||||||| |||| | |||| | || || | || | ||| | ||||||| || || || ||||| || |||||||||||||| ||||| | || ||||||||||| || |||||||||| || || || ||||| || |||||
gtgagaaacatatctattttgttgttggttcttagcactatgccttataaataattacagcacaatgaatcctctttagatgttgtctttaaattactaccacttaggagat-accatgtctgtatgcactctaaatt--tcaaatgacctttacagGAAATCCAAGAGTCACACCAGAGGTTACAAGGGATGTCTGCTTGCTTGCAAGAATGATGGCAGCAAACTTGTATTGCTCACAAATTGAGGATCTCATGTT
upper sequence: Vv12s0028g02180.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G110714_T01 (Zea mays), 3'ss of exon 4
----aaaccaatggaaatt--ttaagtaaatggaatttcttattta--aaacca--cttctaagatt----atgatgtattggtggcttaatgttgctttgatgtggatggcagGAAACCCCAGGGTAACACCTGAAGTTACAAGGGATGTATGCTTATTGGCCAGAATGATGGCTGCTAACTTGTATTATTCTCAGATAGAGGACCTTATGTT
| | || | | ||| | || | || | | || | || || | || || | | | | || ||| || |||||| ||| |||| || || || || || || || |||||||||||||||||||| ||||| ||||||||||||||||| |||||| || | |||||||| ||||| |||||
gtacatagcattctctctcccttatttggatagtatatttgatgtgctgaatcatgcaactgtagttcacaagaaagaagtgcaaatataactctgaactgatgtccatgacagGGAATCCAAGAGTCACGCCAGAGGTTACAAGGGATGTATGCTTGTTGGCTAGAATGATGGCTGCTAATTTGTATAATGCCCAGATAGAAGACCTGATGTT
upper sequence: Vv12s0028g02180.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G53310.3 (Arabidopsis thaliana), 3'ss of exon 4
--aaaccaatggaaattttaagtaaatggaatttcttatttaaaaccacttctaagattatgatgtattggtggcttaatgttgctttg-atgtggatg-gcagGAAACCCCAGGGTAACACCTGAAGTTACAAGGGATGTATGCTTATTGGCCAGAATGATGGCTGCTAACTTGTATTATTCTCAGATAGAGGACCTTATGTT
| | | || | | || | | ||||||| || ||| | || | | || | || | || | | | ||||| || ||||| ||||| ||||| ||||||||||| || || ||||| ||||| || || |||||||||||||||| |||| | | || || || || ||||||||
gtacatttctacaagtccttctcgcatagc-tctcttattgcgctccctctctta-atggt--tttactcatgtcacaaactcacaatatatgtgtatttgcagGTAACCCAAGGGTTACACCTGAAGTCACCAGAGATGTTTGCTTGTTAGCTAGAATGATGGCTGCTACTATGTACTTTAACCAAATCGAAGATCTTATGTTMapped 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|161706416|gb|FC057580.1|FC057580EST: TAATGCCCCCCTTATTCAGTTTTCTTCTTGGATGGGTGGGGATCGTGATG GAAACCCCAGGGTAACACCTGAAGTTACAAGGGATGTATGCTTATTGGCCA
genomic: TAATGCCCCCCTTATTCAGTTTTCTTCTTGGATGGGTGGGGATCGTGATGgtataatcct ... tggatggcagGAAACCCCAGGGTAACACCTGAAGTTACAAGGGATGTATGCTTATTGGCCA
EST:
gi|71860987|gb|DT010042.1|DT010042EST: TAATGCCCCCCTTATTCAGTTTTCTTCTTGGATGGGTGGGGATCGTGATG GAAACCCCAGGGTAACACCTGAAGTTACAAGGGATGTATGCTTATTGGCCA
genomic: TAATGCCCCCCTTATTCAGTTTTCTTCTTGGATGGGTGGGGATCGTGATGgtataatcct ... tggatggcagGAAACCCCAGGGTAACACCTGAAGTTACAAGGGATGTATGCTTATTGGCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttctaagattatgatgtattggtggcttaatgttgctttgatgtggatggcagGAAACCCCAGGGTAACACCTGAAGTTACAAGGGATGTATGCTTATTGGCCAGAATGATGGCTGCTAACTTGTATTATTCTCAGATAGAGGACCTTATGTT
taagattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaccaatggaaattttaagtaaatggaatttcttatttaaaaccacttctaagattatgatgtattggtggcttaatgttgctttgatgtggatggcagGAAACCCCAGGGTAACACCTGAAGTTACAAGGGATGTATGCTTATTGGCCAGAATGATGGCTGCTAACTTGTATTATTCTCAGATAGAGGACCTTATGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
aaaccaa
- - - - - - - - -aagtaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggtggc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctttg