Sequence
atgc intronic sequence ATGC exonic sequence...ttggtagtgcatatgatgatttgatcccgcctctggactgtcttttctttttacatgagcatgcataccaacttctaaagagttgttttgatgggttcagGGAGTATTTTGAAGATGTTGATAGAACATGGGAAACATTCGAGAAGACACTATGGGGTCATGTTTCCAACTATTACAAACTTTCTAAAGAAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G71820.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G71820.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA03G03120.1 (Glycine max), 3'ss of exon 7
-------ttggtagtgcatatgatgatttgatcccgcctc-tggactgtcttttctttttacatgagcatgcataccaacttctaaagagttgttttgatgggttcagGGAGTATTTTGAAGATGTTGATAGAACATGGGAAACATTCGAGAAGACACTATGGGGTCATGTTTCCAACTATTACAAACTTTCTAAAGAAAG
|| | || |||| | | ||| | || | | | |||| | ||||| | || | |||| | | | | || || | |||| || |||||||||||||| ||| |||| ||||| || || ||||| ||||||||||| || ||||||| | ||| || || || ||||||||
gttatttatgttgagatatgtgattaat-gattttgtttcataaattatcttatagttttaggctaa-----gtatctacttttccaca--tcttgtgtatgtctcagAGAATATTTTGAAGATGTAGATCGAACTTGGGAGACCTTTGAGAAAACACTATGGGGCCACATTTCCAATTTTTATAAGCTCTCCAAAGAAAG
upper sequence: AT1G71820.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 6
-ttggtagtgcatatgatgatttgatcccgcctctggactgtcttttctttttacatgagc-atgcataccaacttctaaagagttgttttgatgggttcagGGAGTATTTTGAAGATGTTGATAGAACATGGGAAACATTCGAGAAGACACTATGGGGTCATGTTTCCAACTATTACAAACTTTCTAAAGAAAG
| || || | ||||| | | | | | | || | | | | | | || | | | || |||| || ||||| ||||| |||||||| ||| |||| ||||| ||||| ||||||||| ||||||| ||| |||| |||| || |||||||||||||||||
aacaggtttggatgtaatgatgaatacatgacac-aaaggatagttgatatctgtgcgctttgttcttatgatttgagattgaagtgttg-aatattcatagGGAATATTTCGAAGATGTAGATCGAACCTGGGAGACATTTGAGAAGACATTATGGGGCCATATTTCGAACTTCTATAAACTTTCTAAAGAAAG
upper sequence: AT1G71820.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv03s0097g00670.t01 (Vitis vinifera), 3'ss of exon 6
-ttggtagtgcatatgatgatttgatcccgcctctggactgtcttttctttttacatgagc-atgcataccaacttctaaagagttgttttgatgggttcagGGAGTATTTTGAAGATGTTGATAGAACATGGGAAACATTCGAGAAGACACTATGGGGTCATGTTTCCAACTATTACAAACTTTCTAAAGAAAG
| || || | ||||| | | | | | | || | | | || | | || | | | || || | || |||||| |||||||||||||| ||| |||| ||||| ||||| |||||||| ||||||||||| |||| |||| || |||||||||||||||||
aacaggtttggatgtaatgatgaatacacaacac-aaaggatagttgatgtctgtgtgctttgttcttatgatttgagattgaaatgctg-aatatacacagGGAATATTTTGAAGATGTAGATCGAACCTGGGAGACATTTGAGAAGACGTTATGGGGTCATATTTCAAACTTCTATAAACTTTCTAAAGAAAGMapped 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|164195966|gb|ES047551.1|ES047551EST: GGAGGTTGGGAGGCTGAG GGAGTATTTTGAAGATGTTGATAGAACATGGGAAACATTCGAGAAGACACT
genomic: GGAGGTTGGGAGGCTGAGgtttgtatat ... atgggttcagGGAGTATTTTGAAGATGTTGATAGAACATGGGAAACATTCGAGAAGACACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctttttacatgagcatgcataccaacttctaaagagttgttttgatgggttcagGGAGTATTTTGAAGATGTTGATAGAACATGGGAAACATTCGAGAAGACACTATGGGGTCATGTTTCCAACTATTACAAACTTTCTAAAGAAAG
ttctaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttggtagtgcatatgatgatttgatcccgcctctggactgtcttttctttttacatgagcatgcataccaacttctaaagagttgttttgatgggttcagGGAGTATTTTGAAGATGTTGATAGAACATGGGAAACATTCGAGAAGACACTATGGGGTCATGTTTCCAACTATTACAAACTTTCTAAAGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA