Sequence
atgc intronic sequence ATGC exonic sequencegtgtttctctcatcacattgttcatcctcgctagcataaacagcttctagaatcttacacacaaaatctttctttgatgcagACACCTGTTTACACGATTGCTTCCAATGCTGGAGTCGAGGGTGCAGTTGTCGTAGGCAAGCTTTTGGAACAAGATAATCCTGACCTTGGTTATGATGCTG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G33210.2 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G33210.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: LOC_Os10g32550.1 (Oryza sativa), 3'ss of exon 15
gtgtttctctcatcaca-ttgttcatcctcgctagcataaacagcttcta-gaatcttacacacaaaatctttctttgatgcagACACCTGTTTACACGATTGCTTCCAATGCTGGAGTCGAGGGTGCAGTTGTCGTAGGCAAGCTTTTGGAACAAGATAATCCTGACCTTGGTTATGATGCTG
|| | || | | | |||| | | | ||||| | | || | | | | |||||||||| || |||| ||||||||||| || || || || || || ||||| || || |||||||||||||||||||| | |||||||| |||||||| |
gtttgggagggataataacttctcatttcctgttttgctgatttcttctctgggagcaaaacctgatgacaacttattttgcagACACCGGTGCACACTATTGCTTCCAACGCAGGTGTAGAAGGGGCTGTTGTTGTCGGTAAGCTTTTGGAACAAGATAACACCGACCTTGGCTATGATGCGG
upper sequence: AT2G33210.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: LOC_Os03g04970.1 (Oryza sativa), 3'ss of exon 15
gtgtttctctcatcacattgttcatcctcgctagcataaacagcttctagaatcttacacacaaaatctttctt-tgatgcagACACCTGTTTACACGATTGCTTCCAATGCTGGAGTCGAGGGTGCAGTTGTCGTAGGCAAGCTTTTGGAACAAGATAATCCTGACCTTGGTTATGATGCTG
| ||| ||| | | || ||| | | | || || || | || ||||||| || || |||| |||||||| ||||| || || || || | || | | ||||||||||||||||| |||||| |||| || |||||||||||||
----------gtttacaaatcccattttgttttcaattgttcctctcttgcttgctccatctaatggctggataatgctgcagACCCCAGTGCACACAATTGCTTCGAATGCGGGTGTAGAAGGATCTGTCATTATTGGCAAGCTTTTGGAACAGGATAATACTGATCTAGGTTATGATGCTG
upper sequence: AT2G33210.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GRMZM2G111477_T02 (Zea mays), 3'ss of exon 2
---------------------gtgtttctctcatcacattgttcatcctcgctag-cataaacagcttctagaatcttacacacaaaatctttctttgatgcagACACCTGTTTACACGATTGCTTCCAATGCTGGAGTCGAGGGTGCAGTTGTCGTAGGCAAGCTTTTGGAACAAGATAATCCTGACCTTGGTTATGATGCTG
|| | | ||| || | | | | ||| || || || ||| ||| || || |||||||||||||| |||| ||||| ||||||||||| || ||||| ||||| || ||||| ||||||||||| ||||| ||| ||||||| |||||||||||||
atcattcagaatgctttgaaggtccggtggcaagaaagttggatgtcttttcaggactcgtacatgtttgctaacctaacatgcaatattttgt----atgcagACACCTGTACACACAATTGCCTCCAATGCTGGGGTGGAGGGAGCAGTAGTTGTAGGAAAGCTTTTGGAGCAAGAAAATACTGACCTGGGTTATGATGCTG
upper sequence: AT2G33210.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GRMZM2G111477_T01 (Zea mays), 3'ss of exon 3
gtgtttctctcatcacattgttcatcctcgctag-cataaacagcttctagaatcttacacacaaaatctttctttgatgcagACACCTGTTTACACGATTGCTTCCAATGCTGGAGTCGAGGGTGCAGTTGTCGTAGGCAAGCTTTTGGAACAAGATAATCCTGACCTTGGTTATGATGCTG
|| | | ||| || | | | | ||| || || || ||| ||| || || |||||||||||||| |||| ||||| ||||||||||| || ||||| ||||| || ||||| ||||||||||| ||||| ||| ||||||| |||||||||||||
gtccggtggcaagaaagttggatgtcttttcaggactcgtacatgtttgctaacctaacatgcaatattttgt----atgcagACACCTGTACACACAATTGCCTCCAATGCTGGGGTGGAGGGAGCAGTAGTTGTAGGAAAGCTTTTGGAGCAAGAAAATACTGACCTGGGTTATGATGCTG
upper sequence: AT2G33210.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GRMZM2G416120_T01 (Zea mays), 3'ss of exon 14
gtgtttctctcatcacattgttc-atcctcgctagcataaacagcttctagaatcttacacacaaaatctttctttgatgcagACACCTGTTTACACGATTGCTTCCAATGCTGGAGTCGAGGGTGCAGTTGTCGTAGGCAAGCTTTTGGAACAAGATAATCCTGACCTTGGTTATGATGCTG
||| | | | |||| || | | || | || | | | | | | || |||||||||||||| |||| ||||| ||||||||||| || ||||| ||||| || || |||||||||||||| |||| || |||||||||||||||||||||
----gtctgggagaagaatgttggattttttcccccagattcatacttgtgtgctaagctggcgtggaatattttgtatgcagACACCTGTACACACCATTGCCTCCAATGCTGGGGTGGAGGGAGCAGTAGTTGTGGGCAAGCTTTTGGAGCAAGGAAACACTGACCTTGGTTATGATGCTG
upper sequence: AT2G33210.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA10G25630.1 (Glycine max), 3'ss of exon 15
----------------gtgtttctctcatcacatt---gttcatcctcgctagcataaacagcttctagaatcttacacacaaaatctttctttgatgcagACACCTGTTTACACGATTGCTTCCAATGCTGGAGTCGAGGGTGCAGTTGTCGTAGGCAAGCTTTTGGAACAAGATAATCCTGACCTTGGTTATGATGCTG
| ||| || | ||| ||| | ||| | | | | || || || ||| || ||| | |||||||||||||| ||| ||||| || ||||| || || |||||||||||||| || ||||| || |||||||| || |||| ||| || || |||||||| |
atgatggatatggattgcattttccttgatatattatagtttaacctagattgttattttgggttgtaatattttat-tacctgttctaaaaataatgcagACACCTGTGCTCACAATTGCATCAAATGCGGGTGTTGAGGGTGCAGTTGTTGTTGGCAAACTATTGGAACAGGAGAATCATGATCTAGGATATGATGCAG
upper sequence: AT2G33210.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA20G19980.1 (Glycine max), 3'ss of exon 15
---------------gtgtttctctc-atcacattgtt--catcctcgctagcataaacagcttctagaatcttacacacaaaatctttctttgatgcagACACCTGTTTACACGATTGCTTCCAATGCTGGAGTCGAGGGTGCAGTTGTCGTAGGCAAGCTTTTGGAACAAGATAATCCTGACCTTGGTTATGATGCTG
| ||| || || | || ||| | ||| | | | | || | | ||| | | |||||||||||||| ||| ||||| || ||||| ||||| |||||||||||||| || ||||| || ||||| || || |||| ||| || || |||||||| |
tgatggatatggattgcattttcctttatgatatggtttttaacctagattgttattttgggttatcattttttattacttgttcataaaaataatgcagACACCTGTGCTCACTATTGCATCAAATGCGGGAGTTGAGGGTGCAGTTGTTGTTGGCAAACTATTGGAGCAGGAGAATCATGATCTAGGATATGATGCAG
upper sequence: AT2G33210.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: Vv05s0051g00340.t01 (Vitis vinifera), 3'ss of exon 15
--------------gtgtttctctcatcacattgttcatcctcgctagcataaacagcttctagaatctta----cacacaaaatctttctttgatgcagACACCTGTTTACACGATTGCTTCCAATGCTGGAGTCGAGGGTGCAGTTGTCGTAGGCAAGCTTTTGGAACAAGATAATCCTGACCTTGGTTATGATGCTG
|| ||| | | | | | | ||||| || | | | | || | || |||||||||||||| | ||| |||||||| ||||||||||| ||||| || ||||| || || ||||| ||||| || ||||| ||||| ||||| |||||||| |
tgaaaagttctggaacattatgttcagtttaatcaatggatttggttttactgctctcttcttatgtcctgacagcctcccatattaattttatatgcagACACCTGTGTTCACAATTGCTTCTAATGCTGGAGTTGAGGGGGCTGTTGTGGTTGGGAAGCTGTTGGAGCAGGATAACCCTGATCTTGGATATGATGCGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcgctagcataaacagcttctagaatcttacacacaaaatctttctttgatgcagACACCTGTTTACACGATTGCTTCCAATGCTGGAGTCGAGGGTGCAGTTGTCGTAGGCAAGCTTTTGGAACAAGATAATCCTGACCTTGGTTATGATGCTG
tctttcttt CT-rich tract
aaaatcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtttctctcatcacattgttcatcctcgctagcataaacagcttctagaatcttacacacaaaatctttctttgatgcagACACCTGTTTACACGATTGCTTCCAATGCTGGAGTCGAGGGTGCAGTTGTCGTAGGCAAGCTTTTGGAACAAGATAATCCTGACCTTGGTTATGATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG