Sequence
atgc intronic sequence ATGC exonic sequence...gagaaaacaatatattcttaaaattttacatattgttacatatttttcatttttcactatttttattgtttgcttatgttaaatttttcgtgacaaacagAAAGATGTAGAATTGGATCTACTCCACAAAACGAGTGGTATTTCTTCAGTCACAAGGATAGAAAGTACCCTACAGGTTCAAGGACTAATAGAGCAACGAA
Basic information
species | Glycine max |
transcript | GLYMA09G36820.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G36820.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G33280.1 (Arabidopsis thaliana), 3'ss of exon 1
gagaaaacaatatattcttaaaattttacatattgttacatatttttcatttttcactatttttattgtttgcttatgttaaatttttcgtgacaaacagAAAGATGTAGAATTGGATCTACTCCACAAAACGAGTGGTATTTCTTCAGTCACAAGGATAGAAAGTACCCTACAGGTTCAAGGACTAATAGAGCAACGAA
|| | | || |||| | | | ||| | | | || || | || | | || || ||||| || ||| ||||| | ||| ||||| || |||||||| ||||||||||||||||| ||||||||||| || || || ||||| |||||||| || | ||||| |
----gtacgttcttttattaataatacatatacgatc---caatcctctagttatattagatactatacaaaagcatttt---ttttttgtt-tttgtagATAGATGCAAAATAGGATCAACGCCACAAAATGAGTGGTATTTCTTCAGCCACAAGGATAGGAAATATCCGACAGGGTCAAGGACAAACCGTGCAACCCA
upper sequence: GLYMA09G36820.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv18s0089g01120.t01 (Vitis vinifera), 3'ss of exon 1
-gagaaaacaatatattcttaaaattttacatattgttacatattt-ttcatttttcactatttttattgtttgcttatgttaaattttt-cgtg-acaaacagAAAGATGTAGAATTGGATCTACTCCACAAAACGAGTGGTATTTCTTCAGTCACAAGGATAGAAAGTACCCTACAGGTTCAAGGACTAATAGAGCAACGAA
| | || |||| | ||| |||| || | | || | ||| || || | | |||||| || | | | ||| | ||| | | | |||| |||||||| ||||| || || |||||||| |||||||| |||||||| ||||||||||| ||||| || ||||| ||||||||||||||||| || ||
caacagccaaacatatccctaatattt---at-tggctatacttttgttgatgaattattattttgatgttgtaacttagttgattttgtgtatatgtatgcagAGAGATGTAGGATTGGGTCCACACCACAAAATGAGTGGTACTTCTTCAGCCACAAGGATAGGAAGTATCCAACAGGGTCAAGGACTAATAGAGCCACAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcatttttcactatttttattgtttgcttatgttaaatttttcgtgacaaacagAAAGATGTAGAATTGGATCTACTCCACAAAACGAGTGGTATTTCTTCAGTCACAAGGATAGAAAGTACCCTACAGGTTCAAGGACTAATAGAGCAACGAA
tttttcgt CT-rich tract
tatttttattgtttgc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gagaaaacaatatattcttaaaattttacatattgttacatatttttcatttttcactatttttattgtttgcttatgttaaatttttcgtgacaaacagAAAGATGTAGAATTGGATCTACTCCACAAAACGAGTGGTATTTCTTCAGTCACAAGGATAGAAAGTACCCTACAGGTTCAAGGACTAATAGAGCAACGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- -aaaacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtttgc