Sequence
atgc intronic sequence ATGC exonic sequence...gatgatctagggagcaatcactggcttcattcttcctcttccatctaatatctatatatatcctaccatcttagcttacttggaatctgattcgtatcagGTCTTACTTAGCCAGTGCCATCGGTATCGTGCTCTGGTGCTTCTTGGAAGATTTCTTGATATGGGTCCTTGGGCTGTCGATTTG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G01770.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G01770.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: LOC_Os11g01872.1 (Oryza sativa), 3'ss of exon 9
gatgatctagggagcaatcactggcttcattcttcctcttccatctaatatctatata-tatcctaccatcttagcttacttgga---atctgattcgtat-cagGTCTTACTTAGCCAGTGCCATCGGTATCGTGCTCTGGTGCTTCTTGGAAGATTTCTTGATATGGGTCCTTGGGCTGTCGATTTG
||| || ||| | | | | | | | | || | || | | | | ||| || || | | | | | | |||| || ||||| |||| || | | | | || || || || ||||||||||||||||| ||||| |||||||| || ||||||
-----tcttatctgctttcagtatttatgctggaaatttgctacatgggttccctttaattatcaattgttttactttgctctaatacacttatgttatgtgtagGTTTTGCTTAGTCAGTCACACAGATTTAGAGCACTTGTTCTGCTTGGAAGATTTCTTGACATGGGACCTTGGGCAGTTGATTTG
upper sequence: AT5G01770.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: LOC_Os12g01922.1 (Oryza sativa), 3'ss of exon 10
gatgatctagggagcaatcactggcttcattcttcctcttccatctaatatctatata-tatcctaccatcttagcttacttgga---atctgattcgtat-cagGTCTTACTTAGCCAGTGCCATCGGTATCGTGCTCTGGTGCTTCTTGGAAGATTTCTTGATATGGGTCCTTGGGCTGTCGATTTG
||| | || ||| | | | | | | | | || | || | | | | ||| || || | | | | | | |||| || ||||| |||| || | | | | || || || || ||||||||||||||||| ||||| |||||||| || ||||||
-----tcttgtctgctttcagtatttgtgctggaaatttgctacatgggttccctttaattatcaattgttttactttgctctaatacacttttgttatgtgtagGTTTTGCTTAGTCAGTCACACAGATTTAGAGCACTTGTTCTGCTTGGAAGATTTCTTGACATGGGACCTTGGGCAGTTGATTTG
upper sequence: AT5G01770.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv08s0058g00890.t01 (Vitis vinifera), 3'ss of exon 10
------------gatgatctagggagcaatcactggcttcattcttcctcttccatctaatatctatatatatcctaccatcttagcttacttggaatctgattcgtatcagGTCTTACTTAGCCAGTGCCATCGGTATCGTGCTCTGGTGCTTCTTGGAAGATTTCTTGATATGGGTCCTTGGGCTGTCGATTTG
| || | | | | | || | | |||| | ||| || ||| || | | | | ||| | || | |||| ||||| || || |||||||| | ||| || |||||||||||||||||||| ||||||||||| || |||||||| ||| ||
tgtgtatttcttcctccccttgaaaaaagaaaaagaaaatcttttattttttccgcttt---tctttacatagaataacggataatccaact---------gtctgtcttagGTTTTACTGAGTCAATGCCATCGATTTCGAGCGCTGGTGCTTCTTGGAAGATTCCTTGATATGGGACCATGGGCTGTAGATCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatatctatatatatcctaccatcttagcttacttggaatctgattcgtatcagGTCTTACTTAGCCAGTGCCATCGGTATCGTGCTCTGGTGCTTCTTGGAAGATTTCTTGATATGGGTCCTTGGGCTGTCGATTTG
tctatatatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatgatctagggagcaatcactggcttcattcttcctcttccatctaatatctatatatatcctaccatcttagcttacttggaatctgattcgtatcagGTCTTACTTAGCCAGTGCCATCGGTATCGTGCTCTGGTGCTTCTTGGAAGATTTCTTGATATGGGTCCTTGGGCTGTCGATTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - caatcac
- - - - - - - - - - - - - - - - - cctcttc
- - - - - - - - - - - - - - - - - - - - -catctaa