Sequence
atgc intronic sequence ATGC exonic sequencegtaggtacctcaatgatttattatcaccagtgatccagttttcaactacatttttacattcgtcttgtagATTAGTAGCCGTAATTTGGATAGAGTTCGGAAATTGAAGAGTGCCATGACTCGGTTGACAGCTCGGGTTCAAAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G64560.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G64560.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA20G35260.2 (Glycine max), 3'ss of exon 4
-------------------gtaggtacct------caatgatttattatcaccagtgatccagttttcaact---acatttttacattcgt--cttgtagATTAGTAGCCGTAATTTGGATAGAGTTCGGAAATTGAAGAGTGCCATGACTCGGTTGACAGCTCGGGTTCAAAAG
||| | ||| | | ||||||| | || | |||| | |||| | ||| || | | || || |||||||||| ||||||||||| |||||||| ||| |||||||||| ||||| || |||| ||| |||||||||||
gcactagttccatgttgctctagtttcctttcttccttttatttattgacttttttggttcagtcatgaactttaaaattattgtaattgtaatctgcagATTAGTAGTCGTAATTTGGACAGAGTTCGTAAACTGAAGAGTGCAATGACAAGGCTGACTGCTAGGGTTCAAAAG
upper sequence: AT5G64560.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA10G32350.1 (Glycine max), 3'ss of exon 4
-------------------------gtaggtacctcaatgatttattatcaccagtgatccagttttcaact---acatttttacattcgt--cttgtagATTAGTAGCCGTAATTTGGATAGAGTTCGGAAATTGAAGAGTGCCATGACTCGGTTGACAGCTCGGGTTCAAAAG
| | | ||| ||| | || | |||| | |||| | ||| || | | || || |||||||||| || |||||||| |||||||| ||| |||||||||| ||||| || |||| ||| |||||||||||
gctctagttcgattttgctcttgtttcctttcttccttttgtttcttaacttttttggttcagtcatgaactttaaaattattgtaattgtaatctgcagATTAGTAGTCGAAATTTGGACAGAGTTCGAAAACTGAAGAGTGCAATGACAAGGCTGACTGCTAGGGTTCAAAAG
upper sequence: AT5G64560.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv05s0020g04720.t01 (Vitis vinifera), 3'ss of exon 4
-------------------gtaggtacctcaatgatttattatcaccag---tgatccagttttcaactac-atttttacat-tcgtct------tgtagATTAGTAGCCGTAATTTGGATAGAGTTCGGAAATTGAAGAGTGCCATGACTCGGTTGACAGCTCGGGTTCAAAAG
| | || || ||| || | || | | || ||| || || ||| | || ||| || |||||||||||| |||||||||| | ||||| |||||||||||||| ||||| | ||||| |||||||||||||||
cctatattgtttcagatatgcctctttctttttgttttttttcttctgagcttgctgcttttgtcatctttgatcattatgtgtcttctgtaaactgcagATTAGTAGCCTTAATTTGGATCGGGTTCGTAAATTGAAGAGTGCAATGACGAGATTGACTGCTCGGGTTCAAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttattatcaccagtgatccagttttcaactacatttttacattcgtcttgtagATTAGTAGCCGTAATTTGGATAGAGTTCGGAAATTGAAGAGTGCCATGACTCGGTTGACAGCTCGGGTTCAAAAG
ttcgtctt CT-rich tract
tacatttttacatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggtacctcaatgatttattatcaccagtgatccagttttcaactacatttttacattcgtcttgtagATTAGTAGCCGTAATTTGGATAGAGTTCGGAAATTGAAGAGTGCCATGACTCGGTTGACAGCTCGGGTTCAAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC