Sequence
atgc intronic sequence ATGC exonic sequencegtaaatacacacacacacactgtacacataaataacactggctagctagttatctaattaatcatatcatatacatgtgtattccacttattatagatttcaatcatatgttgtagGAAGTACCAGAGTGTCAAAGAGCTGATGCAGCAAATAGTCTAGTATATGAGGCTAATGTGAGGCTAAGAGATCCTGTGTATGGATGCATGGGTGCAATTT
Basic information
species | Glycine max |
transcript | GLYMA04G39830.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G39830.1 (Glycine max), 3'ss of exon 1
lower sequence: AT2G40470.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaaatacacacacacacactgtacacataaataacactggctagctagttatctaattaatcatatcatatacatgtgtattccacttattatagatttcaatcatatgttgtagGAAGTACCAGAGTGTCAAAGAGCTGATGCAGCAAATAGTCTAGTATATGAGGCTAATGTGAGGCTAAGAGATCCTGTGTATGGATGCATGGGTGCAATTT
| | ||| | |||| | || ||| ||| || | |||||| | | || | | || | || ||| ||| | || |||||||||| ||| | || ||||| ||||| || ||||| || || ||||| || || ||||||||||||||||| ||||| ||||||||||| || || |
-ttattactctgtatttcactatgca-------aaccctg-ttaaaagaaaaaaagattaatggttttg---gcaaaattctcacaatgtgtaacaattccaaactaat----cagGAAGTACCTGAGAGCCAGAGAGCAGATGCCGCGAATAGCCTTGTGTATGAAGCAAACGTGAGGCTAAGAGATCCGGTGTACGGATGCATGGGAGCCATCT
upper sequence: GLYMA04G39830.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv13s0067g02380.t01 (Vitis vinifera), 3'ss of exon 2
gtaaatacacacacacacactgtacacataaataacactggctagctagttatctaattaatcatatcatatacatgtgtattccacttattatagatttcaatcatatgttgtagGAAGTACCAGAGTGTCAAAGAGCTGATGCAGCAAATAGTCTAGTATATGAGGCTAATGTGAGGCTAAGAGATCCTGTGTATGGATGCATGGGTGCAATTT
| ||| || | || || | || || | | || | |||| | | | || || | || || ||||||| || || | |||||||| || || || |||||||| || |||||||| |||||| ||||||||||||| || ||||| ||||||||||||||||
-----------------------------gtagaaccctaatt--ctgtctaccagtagtatttcatgttcttgattgattgataacttctcaaatcttacactgttaaatt-cagGAAGTCCCGGAAAGCCAAAGAGCCGACGCCGCCAATAGTCTGGTTTATGAGGCCAATGTGCGGCTAAGAGATCCGGTCTATGGTTGCATGGGTGCAATTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatatcatatacatgtgtattccacttattatagatttcaatcatatgttgtagGAAGTACCAGAGTGTCAAAGAGCTGATGCAGCAAATAGTCTAGTATATGAGGCTAATGTGAGGCTAAGAGATCCTGTGTATGGATGCATGGGTGCAATTT
ttattatagatttcaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatacacacacacacactgtacacataaataacactggctagctagttatctaattaatcatatcatatacatgtgtattccacttattatagatttcaatcatatgttgtagGAAGTACCAGAGTGTCAAAGAGCTGATGCAGCAAATAGTCTAGTATATGAGGCTAATGTGAGGCTAAGAGATCCTGTGTATGGATGCATGGGTGCAATTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC