Sequence
atgc intronic sequence ATGC exonic sequencegtaaaagaaaaacacttctcaacacactcctaaaccaaatttttgtctttataagatatctaaaattttcgtattacacttgtacagTTTGTTAACCGGGTCAATCCTTGCTCATGAGATGATGCATGCATGGCTTCGACTAAATG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G36860.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G36860.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA11G06650.2 (Glycine max), 3'ss of exon 6
-----gtaaaagaaaaacacttctcaacacactcctaaaccaaatttttgtctttataagatatctaaaattttcgtattacacttgtacagTTTGTTAACCGGGTCAATCCTTGCTCATGAGATGATGCATGCATGGCTTCGACTAAATG
| | | || | | | || | | | | || | | |||| | ||| | ||| || || | |||||||| || |||||||| ||||||||||||||||||||||||||| | || || |
gtatccttcttgtacaatctactttcataatctacagtgcttgcatatgacattcctcatatataattcaatttttttttatgtttata--gGTTGTTAACAGGATCAATCCTAGCTCATGAGATGATGCATGCATGGCTTAGGCTTAAAG
upper sequence: AT4G36860.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA01G38640.3 (Glycine max), 3'ss of exon 7
gtaaaagaaaaacacttct-caacacactccta-aaccaaatttttgtctttataagat-----atctaaaatttt-cgtattacacttgtacagTTTGTTAACCGGGTCAATCCTTGCTCATGAGATGATGCATGCATGGCTTCGACTAAATG-----------------------------------------
| | ||| | ||| ||| | || | | | | ||| | || || || |||| | || | | || || |||||||| || |||||||| ||||||||||||||||||||||||||| | || || |
------gtatccttcttatacaatctactttcataatctacagtgcttgcatatgacattccccatatataattcaatttcttttatgtatatagGTTGTTAACAGGATCAATCCTAGCTCATGAGATGATGCATGCATGGCTTAGGCTTAAAGGTATTCAGCCATTAACATGATGCAGAAAGTTTATATTTTTG
upper sequence: AT4G36860.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA01G38640.2 (Glycine max), 3'ss of exon 7
gtaaaagaaaaacacttct-caacacactccta-aaccaaatttttgtctttataagat-----atctaaaatttt-cgtattacacttgtacagTTTGTTAACCGGGTCAATCCTTGCTCATGAGATGATGCATGCATGGCTTCGACTAAATG
| | ||| | ||| ||| | || | | | | ||| | || || || |||| | || | | || || |||||||| || |||||||| ||||||||||||||||||||||||||| | || || |
------gtatccttcttatacaatctactttcataatctacagtgcttgcatatgacattccccatatataattcaatttcttttatgtatatagGTTGTTAACAGGATCAATCCTAGCTCATGAGATGATGCATGCATGGCTTAGGCTTAAAG
upper sequence: AT4G36860.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv04s0023g01040.t01 (Vitis vinifera), 3'ss of exon 14
-----gtaaaagaaaaacact---tctcaacacactcctaaaccaaatt----tttgtctttataagatatctaaaattttcgtattacacttgtacagTTTGTTAACCGGGTCAATCCTTGCTCATGAGATGATGCATGCATGGCTTCGACTAAATG
|| | | || || ||| | | | ||| || | | | | | | |||| | | | || | ||||| ||| | |||||| | ||||| ||||| |||||||||||||||||||| ||| || |
gtattatatctcttatgctctctatcccaaaatgtttacttgcttgattagttttgatgtatgtgtcgcaaccaaaaaatccctcctaaa---atacagATTGCTGACCGGGACGATCCTGGCTCACGAGATGATGCATGCATGGCTCAAACTGAAAG
upper sequence: AT4G36860.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv04s0023g01030.t01 (Vitis vinifera), 3'ss of exon 11
--gtaaaagaaaaacacttctcaacacactcctaaaccaaatttttgtctttataagatatctaa-aattttcgtattacacttgtacagTTTGTTAACCGGGTCAATCCTTGCTCATGAGATGATGCATGCATGGCTTCGACTAAATG
| | || || | || | | | | ||| || || | | || | || || | ||||| ||| | || ||||| ||||| ||||| |||||||||||||||||||| ||||| || |
gtacatctcttataccctctatagcaaattgtttactt--gctttagtagttttgatgcatgtggcaaaaacaaccttccttgaatacagGTTGCTGACTGGGTCGATCCTGGCTCACGAGATGATGCATGCATGGCTCCGACTGAAAGMapped 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|86086879|gb|DR382638.1|DR382638EST: ATACGTCGTTGTGAAGTCACTGCGATTCTCATTTTATATGGACTTCCTCG TTTGTTAACCGGGTCAATCCTTGCTCATGAGATGATGCATGCATGGCTTCG
genomic: ATACGTCGTTGTGAAGTCACTGCGATTCTCATTTTATATGGACTTCCTCGgtaaaagaaa ... acttgtacagTTTGTTAACCGGGTCAATCCTTGCTCATGAGATGATGCATGCATGGCTTCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaccaaatttttgtctttataagatatctaaaattttcgtattacacttgtacagTTTGTTAACCGGGTCAATCCTTGCTCATGAGATGATGCATGCATGGCTTCGACTAAATG
aatttttgtctttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaagaaaaacacttctcaacacactcctaaaccaaatttttgtctttataagatatctaaaattttcgtattacacttgtacagTTTGTTAACCGGGTCAATCCTTGCTCATGAGATGATGCATGCATGGCTTCGACTAAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG