Sequence
atgc intronic sequence ATGC exonic sequence...taaagggattgcagataacagcagtcacttaaggttgatgagtgatgactgcatcttaattgctcgcttgttataaccctttgattttcttttctttcagATTGAATGTGGTGAGACGGATGCATGGTTATCCATGGAGCTCATGTTTCATCTAAGTGTTCTTCCTCTCACTCTCCAGCTTACTAACATAAGTGGCAATC
Basic information
species | Arabidopsis thaliana |
transcript | AT5G67100.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G67100.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GRMZM2G149802_T02 (Zea mays), 3'ss of exon 11
taaagggattgcagataacagcagtcacttaaggttgatgagtgat-gactgcatcttaattg-ctcgcttgttat--aaccctttg----attttctt-ttctttcagATTGAATGTGGTGAGACGGATGCATGGTTATCCATGGAGCTCATGTTTCATCTAAGTGTTCTTCCTCTCACTCTCCAGCTTACTAACATAAGTGGCAATC
| ||| || || | | | | | | | | || || | || || ||| ||||| ||| ||| ||| | || || |||||| ||||||||| ||||||||| | || ||||||||||||||||| | |||||||| || || || | || | || ||||| ||||| || |
----gtaatttcattcaaacaaaatattgtgctgcttttctctaacagaatgtcttctatttttctcataagttatgaaactaattgcaaaattgtggcactcacctagGTTGAATATGGTGAGACAGATGCATGGCTTTCTTTGGAGCTCATGTTTCATTTGAGTGTTCTCCCACTGACACGACAATTAACCAACATTAGTGGTAACC
upper sequence: AT5G67100.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA01G39430.1 (Glycine max), 3'ss of exon 12
taaagggattgcagataacagcagtcacttaaggttgatgagtgatgactgcatcttaattgctcgcttgtt-ataaccctttgattttcttttctttcagATTGAATGTGGTGAGACGGATGCATGGTTATCCATGGAGCTCATGTTTCATCTAAGTGTTCTTCCTCTCACTCTCCAGCTTACTAACATAAGTGGCAATC
|||| | | | || | | | | | |||| || | ||| |||| ||| | || | | || | | | |||||||||| ||||| || ||||||||| | || ||||| ||||||||| || ||||||||||||| ||||| | ||||| ||||| |||||||||||||
-aaagactatacttttgccatttggaatatttgatcgatggaacatttaattagtttatctgcttttttgctgattgtcatagtgttcttgacttgtccagATTGAATACGGTGAAACAGATGCATGGCTGTCTATGGAACTCATGTTTTATTTAAGTGTTCTTCCGCTCACACGTCAGCTGACTAATATAAGTGGCAATC
upper sequence: AT5G67100.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv07s0031g00470.t01 (Vitis vinifera), 3'ss of exon 10
taaagggattgcagataacagcagtcacttaaggttgatgagtgatgactgcatctt-aattgctcgcttgttataaccctt---tgattttcttttctttcagATTGAATGTGGTGAGACGGATGCATGGTTATCCATGGAGCTCATGTTTCATCTAAGTGTTCTTCCTCTCACTCTCCAGCTTACTAACATAAGTGGCAATC
|| | | | | | | ||| ||| | | || | || ||| || | || | |||| || || || | ||||||||||||| |||||| || |||||||||||||||||||| || ||||||||| | |||||||||||||| |||| | || ||||| || ||||| ||||
----ggtttaactggtctactttgcctattataaatgaaaaatcattgcagctcctttggatgattgcatattatggttctcatcctatgtttaatggtttcagATTGAATATGGTGAAACAGATGCATGGTTATCCATGGAACTTATGTTTCATTTGAGTGTTCTTCCTCTTACTCGTCTTCTGACTAATATCAGTGGTAATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgactgcatcttaattgctcgcttgttataaccctttgattttcttttctttcagATTGAATGTGGTGAGACGGATGCATGGTTATCCATGGAGCTCATGTTTCATCTAAGTGTTCTTCCTCTCACTCTCCAGCTTACTAACATAAGTGGCAATC
ccctttgattttcttt CT-rich tract
tttgattttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaagggattgcagataacagcagtcacttaaggttgatgagtgatgactgcatcttaattgctcgcttgttataaccctttgattttcttttctttcagATTGAATGTGGTGAGACGGATGCATGGTTATCCATGGAGCTCATGTTTCATCTAAGTGTTCTTCCTCTCACTCTCCAGCTTACTAACATAAGTGGCAATC
- - - - - - -gataaca
- - - - - - - - - - - - -cacttaa