Sequence
atgc intronic sequence ATGC exonic sequencegtatgcttgttacttaccttggaattctttataacatgattttggttatttacacatgatctgtttgattgttatagGCTGAAATGCAAAAGTTAAGGGTTGAAATGGCAGCCATGAAGAGGGATGCAGAACATTACTCACGCCAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G19950.2 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G19950.2 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA01G01230.1 (Glycine max), 3'ss of exon 15
-----------------------------------gtatgcttgttacttaccttggaattctttataacatgattttggttatttacacatgatctgtttgattgttatagGCTGAAATGCAAAAGTTAAGGGTTGAAATGGCAGCCATGAAGAGGGATGCAGAACATTACTCACGCCAG
| | | | || | |||| | || | || ||||| | | | | |||| | |||| |||||||||||||||| | || ||||||||||| ||||||||||||||||| || ||||||||||| |||
gcaagattcatttttttttttcttgtgaagtttatttgagataatcacctctcttgcaggtc---aagttgcacattccattattgatatgt--ttggtttcactgtttcagGCTGAAATGCAAAAAATGAGAGTTGAAATGGCTGCCATGAAGAGGGATGCTGAGCATTACTCACGTCAG
upper sequence: AT2G19950.2 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA16G08430.1 (Glycine max), 3'ss of exon 13
----------------------------------------------gtatgcttgttacttaccttggaattctttataacatgattttggttatttacacatgatctgtttgattgttatagGCTGAAATGCAAAAGTTAAGGGTTGAAATGGCAGCCATGAAGAGGGATGCAGAACATTACTCACGCCAG
|| | | | | |||| | || | | ||||| | | | | |||| | |||| |||||||||||||||| | || ||||||||||| ||||||||||||||||| || ||||||||||| |||
gcaagattgattttttatttttattttttcttatgaagtttatttgagataatcgcctcctgtcttgcaggtc---aagttgcacatcccattattgatatgt--ttggtttcactgtttcagGCTGAAATGCAAAAAATGAGAGTTGAAATGGCTGCCATGAAGAGGGATGCTGAGCATTACTCACGTCAG
upper sequence: AT2G19950.2 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: Vv11s0016g03230.t01 (Vitis vinifera), 3'ss of exon 13
------------------gtatgcttgtt--acttaccttggaattctttataacatgattttgg---ttatttacacatgatctgtttgattgtt-atagGCTGAAATGCAAAAGTTAAGGGTTGAAATGGCAGCCATGAAGAGGGATGCAGAACATTACTCACGCCAG
||| | || | ||| || ||||| | | |||| | ||||| | |||| | | ||| | || |||||||| ||||||| | || ||||||||||| |||||||| || |||||||| ||||| ||||| |||
aagtttggctttttcattatataatgatttaagttaattttgaattgcgaaaactgcaatttaagaatctatttgc-catgttttctttatctatttgcagGCTGAATTGCAAAAAATGAGAGTTGAAATGGCTGCCATGAAAAGAGATGCAGAGCATTATTCACGTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattctttataacatgattttggttatttacacatgatctgtttgattgttatagGCTGAAATGCAAAAGTTAAGGGTTGAAATGGCAGCCATGAAGAGGGATGCAGAACATTACTCACGCCAG
tttataacatgatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcttgttacttaccttggaattctttataacatgattttggttatttacacatgatctgtttgattgttatagGCTGAAATGCAAAAGTTAAGGGTTGAAATGGCAGCCATGAAGAGGGATGCAGAACATTACTCACGCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG