Sequence
atgc intronic sequence ATGC exonic sequencegtaatgcaaaggctctcaacttctttccgataaaatgatatttacatacattgggtggtacttcaacgcacataaacaatattgtgggtgatgtagGTGGCATAACCATCTTAACCCTGGGATTAATAAAAATGCATGGACTCAGGAAGAGGAACTGACTCTTATTCGTGCGCATCAAATTTATGGGAATAAATGG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G32730.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G32730.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os12g13570.1 (Oryza sativa), 3'ss of exon 5
-gtaatgcaaaggctctcaacttctttccgataa-----aatgatatttacatacattgggtggtacttcaacgcacataaacaatattgtgggtgatgtagGTGGCATAACCATCTTAACCCTGGGATTAATAAAAATGCATGGACTCAGGAAGAGGAACTGACTCTTATTCGTGCGCATCAAATTTATGGGAATAAATGG
| | ||| || | | | || | ||| | | ||| ||| | ||| || | || || || | | | || ||||||||| ||||||||||||||||| || || || | |||||||| || ||||||||| | || || || | ||| |||| ||| ||||| |||||||||
tatgctaatttatttcttaatgtgcatgccattatttttaatcgagtatcattactgtggattctacgtct-taaagatggactatctaatctgc-atttagGTGGCACAACCATCTTAACCCTGGCATAAACAAGGAGGCATGGACACAAGAAGAGGAAATTACCCTCATACATGCTCATCGAATGTATGGAAATAAATGG
upper sequence: AT4G32730.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv11s0016g03750.t01 (Vitis vinifera), 3'ss of exon 5
------gtaatgcaaaggc-tctcaacttctttccgataaaatgatatttacatacattgggtggtacttcaacgcacataaacaatattgtgggtgatgtagGTGGCATAACCATCTTAACCCTGGGATTAATAAAAATGCATGGACTCAGGAAGAGGAACTGACTCTTATTCGTGCGCATCAAATTTATGGGAATAAATGG
| || | | | | || | || ||| | | | | || | | | ||| || ||| | || | | | |||||||| || ||||| || |||| || || || | ||||||||||| |||||||||||| || | |||| ||| ||||||||||||||||| || |||
tctatgattattctatgatgtttcttttggcttttgatcactttgttaggatgagaatgtgctactttttctacttgcatggattg-atccttcct--ttcagGTGGCACAATCATCTAAATCCTGCCATAAACAAGGAAGCATGGACTCAAGAAGAGGAACTGGCTTTAATTCATGCTCATCAAATTTATGGGAACAAGTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttacatacattgggtggtacttcaacgcacataaacaatattgtgggtgatgtagGTGGCATAACCATCTTAACCCTGGGATTAATAAAAATGCATGGACTCAGGAAGAGGAACTGACTCTTATTCGTGCGCATCAAATTTATGGGAATAAATGG
acataaacaatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgcaaaggctctcaacttctttccgataaaatgatatttacatacattgggtggtacttcaacgcacataaacaatattgtgggtgatgtagGTGGCATAACCATCTTAACCCTGGGATTAATAAAAATGCATGGACTCAGGAAGAGGAACTGACTCTTATTCGTGCGCATCAAATTTATGGGAATAAATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA