Sequence
atgc intronic sequence ATGC exonic sequencegtaataattagtgacataaatctggttttctaacccgtaattcagattagttttgtctcacttttttccgatgcctgcagCTGCAGCTGCCTCTCTTTGTGTCCAAGTAAAGGGTGCAATACCGAGCATGCCTGACCGAAAATCTGTTTTGAAGCTCCTTAAATTTAGTATCTAAAACTG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G17160.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G17160.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os01g47550.1 (Oryza sativa), 3'ss of exon 3
----------------gtaataattagtgacataaatctggttttctaacccgtaattcagattagttttgtctca--cttt--tttccgatgcCTG----CAGCTGCAGCTGCCTCTCTTTGTGTCCAAGTAAAGGGTGCAATACCGAGCATGCCTGACCGAAAATCTGTTTTGAAGCTCCTTAAATTTAGT-ATCTAAAACTG
| | | | | | | || ||| | | || |||| | | ||| ||||| || | ||||||| ||||| ||||| ||||| ||||||||||| || ||||| |||||||||||||||||||| || || | || || ||| | | | | ||
gtactgaaagcaccctctcctcgtcatttgattgcaattgatttcttgttcttcaacattagcatactttgcttgaggcttcaatttccaatttttaatttcagCTGCTGCTGCATCTCTATGTGTTCAAGTAAAGGGAGCCATACCCAGCATGCCTGACCGAAAATCAGTAATGGACCTTCTGGAATCTGTTCAGGTTGAATA-
upper sequence: AT1G17160.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G178346_T02 (Zea mays), 3'ss of exon 1
gtaataattagtgacataaatctggttttctaacccg-taattcagattagttttgtctcacttttttccg-atgcCTG-----CAGCTGCAGCTGCCTCTCTTTGTGTCCAAGTAAAGGGTGCAATACCGAGCATGCCTGACCGAAAATCTGTTTTGAAGCTCCTTAAATTTA---GTATCTAAAACTG
|| | || | | | | | ||| | || | | ||| | | ||| | |||| ||||||| || |||||||| ||||| | ||||||||| || ||||| |||||||||||| ||||||| || ||||||| || ||| | | || || |
---gtacgaaaccacgtcctcttcaatatttgaccgactggtttccttgcatcttgatttgatagcttctacgttcctgaatcccagCTGCTGCCGCCTCTCTGTGTGTTCGAGTAAAGGGGGCTATACCCAGCATGCCTGACAGAAAATCGGTGATGAAGCTTCTGGAATCTGTGGGAGTCGAATA--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttctaacccgtaattcagattagttttgtctcacttttttccgatgcctgcagCTGCAGCTGCCTCTCTTTGTGTCCAAGTAAAGGGTGCAATACCGAGCATGCCTGACCGAAAATCTGTTTTGAAGCTCCTTAAATTTAGTATCTAAAACTG
attagtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaataattagtgacataaatctggttttctaacccgtaattcagattagttttgtctcacttttttccgatgcctgcagCTGCAGCTGCCTCTCTTTGTGTCCAAGTAAAGGGTGCAATACCGAGCATGCCTGACCGAAAATCTGTTTTGAAGCTCCTTAAATTTAGTATCTAAAACTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC