Sequence
atgc intronic sequence ATGC exonic sequencegttagattttctccatacatggatactggtctatagttttgtaatagcaactgatagacaacgttttgtgatagGGATTTGATCGAAAAGGGAAGCTGCGAGCTATATGTGGTGGTGGGAGATATGATAGGTTACTCTCTACTTATGGAGGTGATGACTTTCCTGCTTGTGGTT
Basic information
species | Arabidopsis thaliana |
transcript | AT3G46100.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G46100.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA03G34050.1 (Glycine max), 3'ss of exon 8
------------------------------gttagattttctccatacatggatactggtctatagttttgtaatagcaactgatagacaacgttttgtgatagGGATTTGATCGAAAAGGGAAGCTGCGAGCTATATGTGGTGGTGGGAGATATGATAGGTTACTCTCTACTTATGGAGGTGATGACTTTCCTGCTTGTGGTT
|||| || | | || | || ||| || | || || | | | || | || | ||||| ||||| ||| |||| |||||||||||||| ||||||||||| |||||||| || |||| |||| ||| | ||||||| || |||| |||||||
gttacattctttgtgatgctttccattgctgtta-atatgttgcaattgtatatgttgg-ctgttgtatttcttt--ccttcaaatgattaaattcttcagtagGGTTTTGACCGAGAAGGAAAGCTGCGAGCTATCTGTGGTGGTGGTCGATATGATCATTTGTTCTCAACTTTTGGTGCTGATGACATTGCTGCATGTGGTT
upper sequence: AT3G46100.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv08s0040g01360.t01 (Vitis vinifera), 3'ss of exon 8
----------------------------gttagattttctccatacatggatactggtctatagttttgtaatagcaactgatagacaacgttttgtgatagGGATTTGATCGAAAAGGGAAGCTGCGAGCTATATGTGGTGGTGGGAGATATGATAGGTTACTCTCTACTTATGGAGGTGATGACTTTCCTGCTTGTGGTT
| | | | | ||| | | | | | | | || | | | | || | ||| ||||||||||| || |||| ||| |||| || || ||||||||||| ||||||| | ||||||||||||| ||||||||||||| | ||||||||||| |
atgattattcttctctttatagacatgcacatggtgtaatttgttcataaacagtagaccctcttattttcttttc--ccaatgaattcatcttttcatcagGGATTTGATAGAGAAGGAAAGTTGCGGGCCATTTGTGGTGGTGGACGATATGACCGTTTACTCTCTACTTTTGGAGGTGATGACGTCCCTGCTTGTGGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggatactggtctatagttttgtaatagcaactgatagacaacgttttgtgatagGGATTTGATCGAAAAGGGAAGCTGCGAGCTATATGTGGTGGTGGGAGATATGATAGGTTACTCTCTACTTATGGAGGTGATGACTTTCCTGCTTGTGGTT
aactgat putative branch site (score: 3)
tatagttttgtaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagattttctccatacatggatactggtctatagttttgtaatagcaactgatagacaacgttttgtgatagGGATTTGATCGAAAAGGGAAGCTGCGAGCTATATGTGGTGGTGGGAGATATGATAGGTTACTCTCTACTTATGGAGGTGATGACTTTCCTGCTTGTGGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG