Sequence
atgc intronic sequence ATGC exonic sequence...gggagttgattgctttacctttcactttcatttatgtactaccctcttcctctcttttccttttaaatccatatttgaatgagttcatatgttcatgcagTGCAAAGGTATTTGGAGTTTCTGCAAAGTCAATGCAGTGCTCTTATGATGAAAGGGGGAACAGTGTCCCAACGATTCTGCTGATGATGCAAAAGCGATTG
Basic information
species | Glycine max |
transcript | GLYMA03G42090.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G42090.1 (Glycine max), 3'ss of exon 1
lower sequence: AT2G46710.1 (Arabidopsis thaliana), 3'ss of exon 1
gggagttgattgctttacctttcactttcatttatgtactaccctcttcctctcttttccttttaaatccatatttgaatgagt-------tcatatgttcatgcagTGCAAAGGTATTTGGAGTTTCTGCAAAGTCAATGCAGTGCTCTTATGATGAAAGGGGGAACAGTGTCCCAACGATTCTGCTGATGATGCAAAAGCGATTG
|| || || || ||| | || || ||| | | | | || | || | ||| |||||| || ||| || || ||||| || ||||||||||| || || ||||||||||| |||||||| || || || || || ||||||||||| || || || | ||||||||| || |
------tgttttctctagattt-atttctataagagtaaaatataggtttttatatgatctaacatattggtttttctatgagtaaagatttcttattttaattcagTGTAAGTGTATTTGGAGTATCGGCGAAGTCAATGCAATGCTCTTACGACGACAGAGGAAATAGTGTCCCAACAATCCTTCTCAGGATGCAAAAACGTCTA
upper sequence: GLYMA03G42090.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv15s0048g02830.t01 (Vitis vinifera), 3'ss of exon 2
gggagttgattgctttacctttcactttcatttatgtactaccctcttcctctcttttccttt-taaatccatatttgaatgagttcatatgttcatgcagTGCAAAGGTATTTGGAGTTTCTGCAAAGTCAATGCAGTGCTCTTATGATGAAAGGGGGAACAGTGTCCCAACGATTCTGCTGATGATGCAAAAGCGATTG
| | | |||| ||| | || ||| | | ||| | | ||| ||| | ||| || ||| | | | |||||| | ||||||||||||||||| |||||||||||||||| |||||| |||| || |||||||| ||||| ||||| || ||| |||||||||| |||
taaaaaaaaaaacaccacctaattctt-ctttcatgatttcaaattttcttaacatttgatttgtcggtcctgatacattattgtttctcctattgttcagTGCTAGTGTATTTGGAGTTTCTGCCCAGTCAATGCAGTGCTCGTATGATCAAAGAGGCAACAGTGTGCCAACTATTCTTCTTATGTTGCAAAAGCGTTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttcctctcttttccttttaaatccatatttgaatgagttcatatgttcatgcagTGCAAAGGTATTTGGAGTTTCTGCAAAGTCAATGCAGTGCTCTTATGATGAAAGGGGGAACAGTGTCCCAACGATTCTGCTGATGATGCAAAAGCGATTG
ttttaaatccatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gggagttgattgctttacctttcactttcatttatgtactaccctcttcctctcttttccttttaaatccatatttgaatgagttcatatgttcatgcagTGCAAAGGTATTTGGAGTTTCTGCAAAGTCAATGCAGTGCTCTTATGATGAAAGGGGGAACAGTGTCCCAACGATTCTGCTGATGATGCAAAAGCGATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - tgattgc
- - - - - - - - -cctttca
- - - - - - - - - - - - - - - - tatgtac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaatgag