Sequence
atgc intronic sequence ATGC exonic sequencegtatggttagtgcttgtaatatacaattatataatctctttgttttaataagtggttgctcattaagatgaatgttacttgtctagtgaatgagtatgacgttgttgtggttatcagGTTGGTCTTCATTATCTTTCTTGGGATATTTCTGGTGGCAATGCCAGATGTATTGCGATGCTCCAAGCATTCCAAGAGGTTGTTAAAGATTACTCGACGC
Basic information
species | Arabidopsis thaliana |
transcript | AT2G44070.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G44070.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA18G51570.1 (Glycine max), 3'ss of exon 5
gtatggttagtgcttgtaatatacaattatataatctctttgttttaataagtggttgctcattaagatgaatgttacttgtctagtgaatgagtatgacgttgttgtggttatcagGTTGGTCTTCATTATCTTTCTTGGGATATTTCTGGTGGCAATGCCAGATGTATTGCGATGCTCCAAGCATTCCAAGAGGTTGTTAAAGATTACTCGACGC
| ||| | | || | ||| | | || |||||||| || | | || | || | ||| || || ||| | | || | | || | || ||||||||||||| | || ||||| ||| | ||||| |||||||||||||| | |||||||| ||||| |||||||| ||||||| || |||| ||| | |
-----gatag-gttagtca-ataagacctggt--tcaatttgtttttgaaaatt-tggcccttttatatgtattttccttaaccattgta-------atctttatgatgattatcagGTTGGTTTGCAGTATCTGTCTGGAGATATATCTGGTGGCAATGCTCGTTGTATTGCTATGCTTCAAGCATTTCAAGAGGCCATTGAAGACTACAGGGTTC
upper sequence: AT2G44070.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA19G05900.1 (Glycine max), 3'ss of exon 4
gtatggttagtgcttgtaatatacaattatataatctctttgttttaataagtggttgctcattaagatgaatgttacttgtctagtgaatgagtatgacgttgttgtggt-tatcagGTTGGTCTTCATTATCTTTCTTGGGATATTTCTGGTGGCAATGCCAGATGTATTGCGATGCTCCAAGCATTCCAAGAGGTTGTTAAAGATTACTCGACGC
| ||| | || || || || || | || | | | | | || || | | | | |||||| | |||||| ||| | || ||||| || | ||||| ||||||||||||| | |||||||| ||||| |||||||||||||||| | ||||| ||| | |
-----------------ataggacagtgat-taggacctgggtcaatatgttttgtgacctagacctttttaaatattttttccaaaatcttaatgatcttcctttgtggcatttcagGTGGGTTTGCAATATCTAACTGGAGATATAGCTGGTGGCAATGCTCGTTGTATTGCAATGCTTCAAGCATTCCAAGAGGCCATCAAAGACTACAAGGTTC
upper sequence: AT2G44070.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv14s0083g00170.t01 (Vitis vinifera), 3'ss of exon 3
gtatggttagtgcttgtaatatacaattatataatctctttgttttaataagtggttgctcattaagatgaatgttacttgtctagtgaatgagtatgacgttgttgtggttatcagGTTGGTCTTCATTATCTTTCTTGGGATATTTCTGGTGGCAATGCCAGATGTATTGCGATGCTCCAAGCATTCCAAGAGGTTGTTAAAGATTACTCGACGC
| || | |||| | | | ||| | |||| ||| ||| | || ||| || | | ||||| || | | | || ||||||| | || ||| | | | || | |||||||||||||| | |||||||| ||||| || ||||||||||||| | ||||| || || || |
----------aatcagatatggatggttat-tgagcccttagctttag-----atccactctgtaaacaaggtcaaacatgtactctgtctaattatga-attttaattttcattagGTTGGCTTACAGTATTTAGCAGGAGACGTATCTGGTGGCAATGCTCGTTGTATTGCAATGCTTCAGGCATTCCAAGAGGCCATCAAAGACTATTCCACTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaagatgaatgttacttgtctagtgaatgagtatgacgttgttgtggttatcagGTTGGTCTTCATTATCTTTCTTGGGATATTTCTGGTGGCAATGCCAGATGTATTGCGATGCTCCAAGCATTCCAAGAGGTTGTTAAAGATTACTCGACGC
aatgtta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggttagtgcttgtaatatacaattatataatctctttgttttaataagtggttgctcattaagatgaatgttacttgtctagtgaatgagtatgacgttgttgtggttatcagGTTGGTCTTCATTATCTTTCTTGGGATATTTCTGGTGGCAATGCCAGATGTATTGCGATGCTCCAAGCATTCCAAGAGGTTGTTAAAGATTACTCGACGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG