Sequence
atgc intronic sequence ATGC exonic sequencegtaagtaagttattatattgttgttatattattatactttgtcagattgtttgagttctctaaggtgactattttttcagGTTACTGCTGGTGGGAAGTTATTTAATGTTATTGTAGACACAGAAGATACTGGAAAACAGCTCCTTCAAAAGGGTGATCTTCGGAGAAGAGTTACAATTA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G47460.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G47460.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA13G27210.1 (Glycine max), 3'ss of exon 5
-gtaagtaagttattatattgttgttatattattatactttgtcagattgtttgagttctctaaggtgactattttttcagGTTACTGCTGGTGGGAAGTTATTTAATGTTATTGTAGACACAGAAGATACTGGAAAACAGCTCCTTCAAAAGGGTGATCTTCGGAGAAGAGTTACAATTA
| | | || |||| | ||| || | | || || | || | | ||||| |||||||| |||| ||| ||||| | ||||||| |||| ||||||||| |||||||||| || || || || || || ||||| | |||||||| |||||||
gttggacagcatgataacttgtacctgaatttataaatgaaagttcttatgttaagccccggaatatttccatttt--cagGTTACAGCTGCTGGAAAGTTGTATAATGTTGTTGTTGACACAGAAAATACTGGAAAGCAACTACTACAGAATGGCAATCTTAGAAGAAGAGTGACAATTA
upper sequence: AT3G47460.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA12G36520.1 (Glycine max), 3'ss of exon 5
-gtaagtaagttattatattgttgttatattattatactttgtcagattgtttgagttctctaaggtgactattttttcagGTTACTGCTGGTGGGAAGTTATTTAATGTTATTGTAGACACAGAAGATACTGGAAAACAGCTCCTTCAAAAGGGTGATCTTCGGAGAAGAGTTACAATTA
| | || || |||| | ||| || | | || || | || | | ||||| |||||||| || | ||| ||||| | ||||||| |||| ||||||||| ||||||||||||| || || || || || ||||| | |||||||| |||||||
gttggacagcataataacttgtacctgaatttataaatgaaaattcttatgttaagccttggaatattgccatttt--cagGTTACAGCCGCTGGAAAGTTGTATAATGTTGTTGTCGACACAGAAAATACTGGAAAACAACTACTACAGAATGGCAATCTTAGAAGAAGAGTGACAATTA
upper sequence: AT3G47460.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv16s0022g00060.t01 (Vitis vinifera), 3'ss of exon 5
--------------------------------gtaagtaagttattatattgttgttatattattat-actttgtcagattgtttgagttctctaaggtgactattttttcagGTTACTGCTGGTGGGAAGTTATTTAATGTTATTGTAGACACAGAAGATACTGGAAAACAGCTCCTTCAAAAGGGTGATCTTCGGAGAAGAGTTACAATTA
| ||| ||| | || || |||| ||| | | | | |||| || | ||| | || ||||| |||||||||| ||||| ||||||||| |||||||||||||| | |||||||||| || |||||||| |||||||| ||||||||||| || || |
gttgggaatgcatgatagtatataattggtttgctttcaagggcttaattcatttgccaatgtttatgactacaaaataacatacgcattct-tatgctgagttcacttatagGTTGCTGCTGGTGGAAAGTTGTTTAATGTTGTTGTAGACACAGAAAACACTGGAAAACTACTGCTTCAAAATGGTGATCTCCGGAGAAGAGTAACGATCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atattattatactttgtcagattgtttgagttctctaaggtgactattttttcagGTTACTGCTGGTGGGAAGTTATTTAATGTTATTGTAGACACAGAAGATACTGGAAAACAGCTCCTTCAAAAGGGTGATCTTCGGAGAAGAGTTACAATTA
ctattttttc CT-rich tract
attatacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtaagttattatattgttgttatattattatactttgtcagattgtttgagttctctaaggtgactattttttcagGTTACTGCTGGTGGGAAGTTATTTAATGTTATTGTAGACACAGAAGATACTGGAAAACAGCTCCTTCAAAAGGGTGATCTTCGGAGAAGAGTTACAATTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA