Sequence
atgc intronic sequence ATGC exonic sequencegtaagcttcaaataggaattatactgattggagcaataattttctgagacatgaaatggagcttgatctgttaacacttaacactttaacagGATAAGCACAATCCGCATCTTGAACTTACTCTTAGTAATCGCAAGAAGATATCATCTGTACTTGAACATCTCAATCGCAAATGGGGAAGCTCAAGTTGTG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G36960.3 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G36960.3 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA02G05420.1 (Glycine max), 3'ss of exon 9
gtaagcttcaaataggaattatactgattggagcaataattttctgagacatgaaatggagcttgatctg---ttaacacttaacactttaacagGATAAGCACAATCCGCATCTTGAACTTACTCTTAGTAATCGCAAGAAGATATCATCTGTACTTGAACATCTCAATCGCAAATGGGGAAGCTCAAGTTGTG
|| || | ||| | | | | || | | || | | | | |||| | | ||| | || | | || ||||||||||| ||||| || || || ||||| ||||||| ||| |||||||||||||| | | |||||||| || || |||||||| | ||||| |
gtgagtataaaagaaaaccaacaagcatctta-ctttagaaatgtaaaattgcttttggaaactatcatatctttatcttttttccccttctcagGATAAGCATAATCCACACCTGGAGCTTACACTTAGTACTCGAAAGAAGATATCATCAATTTTAGAACATCTAAACCGTAAATGGGGTAATTCAAGCATAG
upper sequence: AT2G36960.3 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA16G23840.2 (Glycine max), 3'ss of exon 8
gtaagcttcaaataggaattatactgattggagcaataattttctgagacatgaaatggagcttgatctg---ttaacacttaacactttaacagGATAAGCACAATCCGCATCTTGAACTTACTCTTAGTAATCGCAAGAAGATATCATCTGTACTTGAACATCTCAATCGCAAATGGGGAAGCTCAAGTTGTG
|| || | ||| | | | | || | | || | | | | |||| | | || | || | | |||||||||| ||||| || || || ||||| ||||||| ||| |||||||||||||| | | |||||||| || || |||||||| | ||||| |
gtgagtataaaagaaaaccaacaagaatctta-ctttagcaatgtaaaagtgcttttggaaactatcatatctttttctttttttcccctcttagGATAAGCATAATCCACACCTGGAGCTTACACTTAGTACTCGAAAGAAGATATCATCAATTTTAGAACATCTAAACCGTAAATGGGGTAATTCAAGCATAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattttctgagacatgaaatggagcttgatctgttaacacttaacactttaacagGATAAGCACAATCCGCATCTTGAACTTACTCTTAGTAATCGCAAGAAGATATCATCTGTACTTGAACATCTCAATCGCAAATGGGGAAGCTCAAGTTGTG
atgaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcttcaaataggaattatactgattggagcaataattttctgagacatgaaatggagcttgatctgttaacacttaacactttaacagGATAAGCACAATCCGCATCTTGAACTTACTCTTAGTAATCGCAAGAAGATATCATCTGTACTTGAACATCTCAATCGCAAATGGGGAAGCTCAAGTTGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA