Sequence
atgc intronic sequence ATGC exonic sequencegtttgtgttcttttaaagcatgtgcatgctctcattgttgttcttggatctgaaactttgtcttgtcttttgaacagAAAATGTTCATGACTGGTTTCTCGGGAGACCTGGAAGCGGCACATGCCAAGGGAACGCAGCTTGCTGGTGAAGCCATAGCTAATGTCAGGACAGTTGCTG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G36910.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G36910.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA13G20530.1 (Glycine max), 3'ss of exon 9
--------gtttgtgttcttttaaagcatgtgcatgctctcattgttgttcttggatctgaaactttgtcttgtcttttgaacagAAAATGTTCATGACTGGTTTCTCGGGAGACCTGGAAGCGGCACATGCCAAGGGAACGCAGCTTGCTGGTGAAGCCATAGCTAATGTCAGGACAGTTGCTG
| || ||| |||||| | || | || | | | || | ||| | ||||||||||||||||||||||||||||||||| || ||||||||||| || |||||||||| ||||| || || || || || ||||| ||||| |||||||||||||
gtttgctttctcacatttctttctagcatgcttagtaatccaattttttattagctacttattttttccactaaattttgaacagAAAATGTTCATGACTGGTTTCTCTGGTGACCTGGAAGCTGCTCATGCCAAGGCCACGCAACTAGCAGGAGAGGCTATAGCCAATGTAAGGACAGTTGCTG
upper sequence: AT2G36910.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA03G34080.1 (Glycine max), 3'ss of exon 9
gtttgtgttcttttaaagcatgt----gcatgctctcattgttgttcttggatctgaaactttgtcttgtc---ttttgaacagAAAATGTTCATGACTGGTTTCTCGGGAGACCTGGAAGCGGCACATGCCAAGGGAACGCAGCTTGCTGGTGAAGCCATAGCTAATGTCAGGACAGTTGCTG
|||||| || ||| | | | |||| | | | | || | | | | | |||||| |||| |||||||||||||||||| |||||||| || ||||||||||| || |||||||||| || || ||||| || ||||| ||||| ||||| ||||||||||| |
gtttgttttttttagatttctttcttgacatgttttgtgattcaattctgtgttttcatttgtatcttgttgggttttatacagAAAATGTTCATGACCGGTTTCTCTGGTGACCTGGAAGCTGCTCATGCCAAGGCTACACAACTTGCAGGAGAAGCTATAGCCAATGTAAGGACAGTTGCAG
upper sequence: AT2G36910.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA19G36820.1 (Glycine max), 3'ss of exon 9
-------gtttgtg---ttcttttaaagcatgtgcatgctctcattgttgttcttggatctgaaactttgtcttgtcttttgaacagAAAATGTTCATGACTGGTTTCTCGGGAGACCTGGAAGCGGCACATGCCAAGGGAACGCAGCTTGCTGGTGAAGCCATAGCTAATGTCAGGACAGTTGCTG
||||| |||||| ||||| | ||| | ||| || || || | || | ||| |||| |||||||||||||||||||||||| || || ||||||||||| || |||||||||| || || ||||| || ||||| ||||| ||||| ||||| ||||| |
gtttgttttttgtagatttctttcttgacatgttttgccattcaattctgtgttttcatttgta---ttttgttgggttttatacagAAAATGTTCATGACTGGTTTTTCTGGGGACCTGGAAGCTGCTCATGCCAAGGCTACACAACTTGCAGGAGAAGCTATAGCCAATGTAAGGACTGTTGCAG
upper sequence: AT2G36910.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA10G06220.1 (Glycine max), 3'ss of exon 10
--------gtttgtgttcttttaaagcatgtgca-tgctctcattgttgttcttggatctgaaactttgtcttgtcttttgaacagAAAATGTTCATGACTGGTTTCTCGGGAGACCTGGAAGCGGCACATGCCAAGGGAACGCAGCTTGCTGGTGAAGCCATAGCTAATGTCAGGACAGTTGCTG
| || ||| |||||| | || || ||| | || | | | || | ||| | ||| ||||||||||||||||||||||||||| || ||| ||||||| || |||||||||| || || || || || || || ||||| ||||| |||||||||||||
gttttctttctcacatttgtttctagcatgcttagtgatccaattat-gtattagcaacttattatttccactaaactttttacagAAAATGTTCATGACTGGTTTCTCTGGTGACTTGGAAGCTGCTCATGCCAAGGCCACACAACTAGCAGGAGAGGCTATAGCCAATGTAAGGACAGTTGCTG
upper sequence: AT2G36910.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv08s0007g05060.t01 (Vitis vinifera), 3'ss of exon 9
--------------gttt-gtgttcttttaaagcatgt-gcatgctctcatt--gttgttcttggatc-----tgaaactttgtcttgtcttttgaacagAAAATGTTCATGACTGGTTTCTCGGGAGACCTGGAAGCGGCACATGCCAAGGGAACGCAGCTTGCTGGTGAAGCCATAGCTAATGTCAGGACAGTTGCTG
|||| || | | || | | | | | | | |||| | | | | | | |||| | | | |||| ||||||||||||||||| |||||||| ||||| || |||| || |||||||||| || || | || || ||||||||||| ||||| || ||||||||||
ttcatttttaacttgtttagtctacccttgaggtacattggaagtgtgcattaggaaaaaactaaaccatttattactctttttgtcggattttcaacagAAAATGTTCATGCAAGGTTTCTCTGGAGATCTAGAAGGTGCCCATGCCAAGGCTACACAATTAGCAGGAGAAGCCATAGCCAATGTGAGAACAGTTGCTGMapped 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|116440751|gb|EG483343.1|EG483343EST: TTGTCCTTGTCGCAGTCTTCCCCGTAGTTGTTGCTGCAACTGTCTTACAG AAAATGTTCATGACTGGTTTCTCGGGAGACCTGGAAGCGGCACATGCCAAG
genomic: TTGTCCTTGTCGCAGTCTTCCCCGTAGTTGTTGCTGCAACTGTCTTACAGgtttgtgttc ... ttttgaacagAAAATGTTCATGACTGGTTTCTCGGGAGACCTGGAAGCGGCACATGCCAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcatgctctcattgttgttcttggatctgaaactttgtcttgtcttttgaacagAAAATGTTCATGACTGGTTTCTCGGGAGACCTGGAAGCGGCACATGCCAAGGGAACGCAGCTTGCTGGTGAAGCCATAGCTAATGTCAGGACAGTTGCTG
ctttgtcttgtctttt CT-rich tract
aaacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtgttcttttaaagcatgtgcatgctctcattgttgttcttggatctgaaactttgtcttgtcttttgaacagAAAATGTTCATGACTGGTTTCTCGGGAGACCTGGAAGCGGCACATGCCAAGGGAACGCAGCTTGCTGGTGAAGCCATAGCTAATGTCAGGACAGTTGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC