Sequence
atgc intronic sequence ATGC exonic sequence...caacaaccaagccttgtcccactagatgccctggacgtttcatttaaactacgtgatttttattcttttctgacagtaagttaatgtttacttattacagATATGATCTCTTGCACAATGCACATCTTAATCTAGAAGGACTTGATGAGCTTTTCAAAGTTGCTCAG
Basic information
species | Glycine max |
transcript | GLYMA19G02260.1 |
intron # | 21 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 21
lower sequence: LOC_Os03g48300.3 (Oryza sativa), 3'ss of exon 23
caacaaccaagccttgtcccactagatgccctggacgtttcatttaaactacgtgatttttattcttttctgacagtaag---ttaatgtttactt--attacagATATGATCTCTTGCACAATGCACATCTTAATCTAGAAGGACTTGATGAGCTTTTCAAAGTTGCTCAG---------------------------------
| | |||| | ||| ||| || ||| | ||| | | |||| || | || | | | | || | | || ||| ||||||||| ||| |||| |||||||||||||| || ||||| | || ||||||||||||||||||||
-cattattcttccttatatatcta-atgtact---tatttgaattatgaaagatcatttacatctgtcatgaaccgcacaatctaagtgctgaattacattgcagATATGACCTCCTGCATAATGCACATCTTAACCTTGAAGGTTTGGAAGAGCTTTTCAAAGTTGCTCAAGTAAGGAACCTTAACGTTCTGTACTTCCATTTG
upper sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 21
lower sequence: LOC_Os03g48300.1 (Oryza sativa), 3'ss of exon 23
caacaaccaagccttgtcccactagatgccctggacgtttcatttaaactacgtgatttttattcttttctgacagtaagtt---aatgtttactt--attacagATATGATCTCTTGCACAATGCACATCTTAATCTAGAAGGACTTGATGAGCTTTTCAAAGTTGCTCAG
| | |||| | ||| ||| || ||| | ||| | | |||| || | || | | | | || | | || ||| ||||||||| ||| |||| |||||||||||||| || ||||| | || ||||||||||||||||||||
-cattattcttccttatatatcta-atgtact---tatttgaattatgaaagatcatttacatctgtcatgaaccgcacaatctaagtgctgaattacattgcagATATGACCTCCTGCATAATGCACATCTTAACCTTGAAGGTTTGGAAGAGCTTTTCAAAGTTGCTCAA
upper sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 21
lower sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 23
----------caacaaccaagc--cttgtcccactagatgccctggacgtttcatttaaactacgtgatttttattcttttctgacagtaagttaatgtttacttattacagATATGATCTCTTGCACAATGCACATCTTAATCTAGAAGGACTTGATGAGCTTTTCAAAGTTGCTCAG
||||| |||| |||| | || | ||| | ||| || || | | || | | || || | ||| | |||||||||||||||||||||||||||||||||||||||||| || ||||||||||||||||||||||||
agtgttctattaacaaaaaagctccttgctcttatatgagtcctttatgttctatgctaa---cattgcttgtgcttttgattgttgacctgccaat---------tcacagATATGATCTCTTGCACAATGCACATCTTAATCTAGAAGATCTGGATGAGCTTTTCAAAGTTGCTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaactacgtgatttttattcttttctgacagtaagttaatgtttacttattacagATATGATCTCTTGCACAATGCACATCTTAATCTAGAAGGACTTGATGAGCTTTTCAAAGTTGCTCAG
tttactt CT-rich tract
taagttaatgtttact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caacaaccaagccttgtcccactagatgccctggacgtttcatttaaactacgtgatttttattcttttctgacagtaagttaatgtttacttattacagATATGATCTCTTGCACAATGCACATCTTAATCTAGAAGGACTTGATGAGCTTTTCAAAGTTGCTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - ccaagcc
- - - - - - - - tcccact
- - - - - - - - - - - - gatgccc
- - - - - - - - - - - - - - - - - - - - - - - - ctacgtg