Sequence
atgc intronic sequence ATGC exonic sequencegttgacaccaactgcttcaactatagttgtatctttcgcttgactaccaatgtctttccactgtttaccactagcaccatcacatagtattttgtgaccttatttttcttggatttccttttggcagTCTTTCCTAAATATGCAGCTGTACGAAAAAGCGCTAGACCTTTTCGAAGATGACCAATCAACTGCA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G46220.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G46220.3 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA11G15470.1 (Glycine max), 3'ss of exon 10
---------------------gttgacaccaactgcttcaactatagttgtatctttc--gcttgactaccaatgtctttccactgtttaccactagcaccatcaca--tagtattttgtgacct-tatttttcttggatttc----cttttggcagTCTTTCCTAAATATGCAGCTGTACGAAAAAGCGCTAGACCTTTTCGAAGATGACCAATCAACTGCA
||| |||| || | ||| ||||| | | | |||| | | | | || | | | | || | | |||| | | | | || || || ||| ||||||||||||||| |||| ||||||||||| |||||||| |||| || || |||||||| ||||||||| |
gtttgactgctaattgcattttttgtttttttctgcatccattattgttgtctttatgtagctttcttttcttctttcattcaagggtatttatcaagacatgtaaaattagtgcccttttatatgtacagtttctgatgttcatcttttttggcagTCTTTCTTAAACATGCAGCTGTATGAAAAAGCCTTAGAACTGTTTGAAGATGATCAATCAACTTCT
upper sequence: AT3G46220.3 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA12G07980.1 (Glycine max), 3'ss of exon 10
---------------------------gttgacaccaactgcttcaactatagttgtatcttt---cgcttgactaccaatgtctttccactgtttaccactagcaccatcacat----agtattttgtga--------ccttatttttcttggatttccttttggcagTCTTTCCTAAATATGCAGCTGTACGAAAAAGCGCTAGACCTTTTCGAAGATGACCAATCAACTGCA
|| |||| || ||||| ||| | ||||| |||| | | | | | ||| | || | ||||| | || | |||| | | ||| | ||| ||| ||||||||||||||| |||| ||||||||||| |||||||| |||| || || |||||||| ||||||||| |
gtttgactgctaaagtttcatttttttttttgttttttctgcatccactattgttctgtctttatgtgctttatttcttctttaattcaagggtatttatctagccatgcaaaattagtggccttttatatgtacagtttcctatgtgcgttgtttttttttttggcagTCTTTCTTAAACATGCAGCTGTATGAAAAAGCCTTAGAACTGTTTGAAGATGATCAATCAACTTCT
upper sequence: AT3G46220.3 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv06s0004g03970.t01 (Vitis vinifera), 3'ss of exon 10
gttgacaccaactgcttcaactatagttgtatctttcgcttgac-taccaatgtctttccactgtttaccactagcaccatcacatagtattttgtgaccttatttttcttggatttccttttggcagTCTTTCCTAAATATGCAGCTGTACGAAAAAGCGCTAGACCTTTTCGAAGATGACCAATCAACTGCA
| || | | | | | | || || || ||| | | | |||||| ||| | | | ||||| || |||| | | || || | ||||||||| ||||||||||||| || | |||||| ||||| | || ||||||||||||||||| |
------------------gagtaaacatctgtttgttgcagaacctataaatatggtac--ctgttttatgctaatat------gtgtttcattgtg--ctaatttctttcttcttccccctctccagTCTTTCTTAAATATGCAGCTCTATGTAAAAGCACTAGATTTGTTTGAAGATGACCAATCAACCTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcaccatcacatagtattttgtgaccttatttttcttggatttccttttggcagTCTTTCCTAAATATGCAGCTGTACGAAAAAGCGCTAGACCTTTTCGAAGATGACCAATCAACTGCA
tttcctttt CT-rich tract
ttatttttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgacaccaactgcttcaactatagttgtatctttcgcttgactaccaatgtctttccactgtttaccactagcaccatcacatagtattttgtgaccttatttttcttggatttccttttggcagTCTTTCCTAAATATGCAGCTGTACGAAAAAGCGCTAGACCTTTTCGAAGATGACCAATCAACTGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG