Sequence
atgc intronic sequence ATGC exonic sequenceGAAGAATTTCAGTTAGCCTTGTTCAAGACAAATAAAAAAGAGAGCTTGTTTGCAGACCGGgtatgttcttcttttttaatcaaaagactttgttatccatttgccaagatcctttttgaaagataacttgacag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G26570.2 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G26570.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA17G00830.1 (Glycine max), 5'ss of exon 4
GAAGAATTTCAGTTAGCCTTGTTCAAGACAAATAAAAAAGAGAGCTTGTTTGCAGACCGGgtatgttcttcttt--tttaatcaaaagactttgttatccatttgccaagatcctttttgaaagataacttgacag------------------------
|||||||||||||| || ||||||||||| || || ||||||||||| |||||||| ||||| | | || || | ||| | | ||| | | | | || || |||
GAAGAATTTCAGTTGGCATTGTTCAAGACGAACAAGAAAGAGAGCTTATTTGCAGATAGGgtacatagaacattaacttcttgtttttctttttccaactgttttttacatttccaccctgaggaaaaagaaacaacaatataaaaatattggcttaaat
upper sequence: AT4G26570.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA08G44580.1 (Glycine max), 5'ss of exon 4
GAAGAATTTCAGTTAGCCTTGTTCAAGACAAATAAAAAAGAGAGCTTGTTTGCAGACCGGgtatgttcttcttttttaatcaaaagactttgttatccatttgccaagatcctt---tttgaaagataacttgacag-------------------------
||||| |||||||| || ||||||||||||||||||||||| || ||||||| || ||||||| || ||| | | | ||| |||| || | | | | | ||||| || | |
GAAGAGTTTCAGTTGGCTTTGTTCAAGACAAATAAAAAAGAAAGTCTGTTTGCTGATCGGgtattgcttttgtttctttttattg--tttttttatgcaaatatctttaccttgaagcatgaaaatctctttcattggtcataaaaaagaaagtctgtttgc
upper sequence: AT4G26570.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA07G39940.1 (Glycine max), 5'ss of exon 4
GAAGAATTTCAGTTAGCCTTGTTCAAGACAAATAAAAAAGAGAGCTTGTTTGCAGACCGGgtatgttcttcttt--tttaatcaaaagactttgttatccatttgccaagatcctttttgaaagataacttgacag------------------------
|||||||||||||| || ||||||||||| || || ||||||||||| |||||||| ||||| | | || || | ||| | | || || | || | || || |||
GAAGAATTTCAGTTGGCATTGTTCAAGACGAACAAGAAAGAGAGCTTATTTGCAGATAGGgtacatagaacattaacttcttgtttttctttttccaactgctttttaatttttcattccgaggaaaaagaaacaacaatataaaaaatattggcttaaa
upper sequence: AT4G26570.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA18G08230.1 (Glycine max), 5'ss of exon 5
GAAGAATTTCAGTTAGCCTTGTTCAAGACAAATAAAAAAGAGAGCTTGTTTGCAGACCGGgtatg--------ttcttctt-----ttttaatcaaaagactttgttatccatttgccaagatcctttttgaaaga--taacttgacag------------
|||| |||||||| || ||||||||||||||||||||||| || ||||||| || ||||||| ||||| || |||| || ||| | ||| | | || ||| ||| | | || | | |
-AAGAGTTTCAGTTGGCATTGTTCAAGACAAATAAAAAAGAAAGTCTGTTTGCTGATCGGGtattgctttcatttctttttattgttttttatgcaaatatttttaccttgaagcatgaaaatctctttccatggtcctatcaggttaatatccacacaga
upper sequence: AT4G26570.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA09G01870.2 (Glycine max), 5'ss of exon 4
GAAGAATTTCAGTTAGCCTTGTTCAAGACAAATAAAAAAGAGAGCTTGTTTGCAGACCGGgtatgttcttcttttttaatcaaaagactttgt-tatccatttgccaagatcctttttgaaagata-acttgacag------------------------
|| ||||||||||| ||||| |||||||||| || ||||||||||| ||| |||| |||||||| ||| || | | | ||| ||| || ||||| | || || || |||
GATGAATTTCAGTTGGCCTTATTCAAGACAACCAAGAAAGAGAGCTTATTTACAGATAGGgtatgtaaaagctttaatttctcatggttatgtctataacttccccaaggaaatgaaaataaattatacaaaacaaataaaatagtttgatgatttttta
upper sequence: AT4G26570.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv00s1569g00020.t01 (Vitis vinifera), 5'ss of exon 3
GAAGAATTTCAGTTAGCCTTGTTCAAGACAAATAAAAAAGAGAGCTTGTTTGCAGACCGGgtatgttcttcttttttaatcaaaa-------------gactttgttatccatttgcca--agatcctttttgaaagataacttgacag-----------
||||||||||| | || || || |||||||| ||||| ||||| |||||||||||||||||| |||| || | |||| | || || ||||||| | ||||||| || | | |
GAAGAATTTCAACTGGCGTTATTTAAGACAAACAAAAAGGAGAGTTTGTTTGCAGACCGGgtacactctttttcacatgtgaaaacttcaagttggtcggtttcattgagggtttgccaccgcacccttttttcccaattcatagtctttatttttcccaMapped 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|86019689|gb|DR315435.1|DR315435EST: AGTTAGCCTTGTTCAAGACAAATAAAAAAGAGAGCTTGTTTGCAGACCGG TACCAATCACAGGTATTCGATTTGTTTGACACA
genomic: AGTTAGCCTTGTTCAAGACAAATAAAAAAGAGAGCTTGTTTGCAGACCGGgtatgttctt ... aacttgacagTACCAATCACAGGTATTCGATTTGTTTGACACA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAAGAATTTCAGTTAGCCTTGTTCAAGACAAATAAAAAAGAGAGCTTGTTTGCAGACCGGgtatgttcttcttttttaatcaaaagactttgttatccatttgccaagatcctttttgaaagataacttgacag
- - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - GAGCTT