Sequence
atgc intronic sequence ATGC exonic sequencegttacatatttttacattccatattatcatcatttttcacttcttccacatatttttgataaaatgtttatgtagATATCGAGGAGAAGGTGGAATATGCACTTAAGCTTTTGGAAGATGAAGGTGATTCATTTGCTAAGCGTGCAGAAATGTATTACAAGAGAAGGCCTGAATT
Basic information
species | Arabidopsis thaliana |
transcript | AT5G10500.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G10500.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv00s0483g00050.t01 (Vitis vinifera), 3'ss of exon 1
----------------------------gt-tacatatttttacattccatattatcatcatttttcacttc-ttccacatatttttgataaaatgtttatgtagATATCGAGGAGAAGGTGGAATATGCACTTAAGCTTTTGGAAGATGAAGGTGATTCATTTGCTAAGCGTGCAGAAATGTATTACAAGAGAAGGCCTGAATT
|| | | | | | ||||| | ||| ||||| || || | || ||| || ||| | |||||| || ||||| || || | ||||| || | | || || || || |||||||| ||| | |||||||||||||||||||||||||| || |
agcaaaacaccaccgagtaaattggctggtatggagagtcatgagctccatgtctacatgtggtttcagttaattatatttagatttcattgaat-----tacagATATGGAAGAGAAAGTTCAAAACATGCTTAAACTCATTCAGGAGGATGGAGACTCATTTGCCAAGAGGGCAGAAATGTATTACAAGAGAAGGCCAGAGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atattatcatcatttttcacttcttccacatatttttgataaaatgtttatgtagATATCGAGGAGAAGGTGGAATATGCACTTAAGCTTTTGGAAGATGAAGGTGATTCATTTGCTAAGCGTGCAGAAATGTATTACAAGAGAAGGCCTGAATT
ttttgat putative branch site (score: 4)
acatatttttgataaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttacatatttttacattccatattatcatcatttttcacttcttccacatatttttgataaaatgtttatgtagATATCGAGGAGAAGGTGGAATATGCACTTAAGCTTTTGGAAGATGAAGGTGATTCATTTGCTAAGCGTGCAGAAATGTATTACAAGAGAAGGCCTGAATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA