Sequence
atgc intronic sequence ATGC exonic sequence...tagcaaatttgtcgtatttatgaagaaaaagatattctttaattacttgtattttattatttatttatttttactgaatttactgttttaaactttgaagGAAAGTGCGGACGGTGATATGGAGGAAGTTCAACGGTGATCGGCGGTTTTACCTGCAGAGGCAAAGGTTTGCCGGTTACCAGTCAGAGATTGCACGTTCG
Basic information
species | Glycine max |
transcript | GLYMA12G08530.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G08530.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G28110.1 (Arabidopsis thaliana), 3'ss of exon 3
-tagcaaatttgtcgtatttatgaagaaaaagatattctttaattacttgtattttattatttatttatttttactgaatttactgttttaaactttgaagGAAAGTGCGGACGGTGATATGGAGGAAGTTCAACGGTGATCGGCGGTTTTACCTGCAGAGGCAAAGGTTTGCCGGTTACCAGTCAGAGATTGCACGTTCG
|| |||| | | || || | | | || ||| || | | | || | | | | || |||| | ||| |||| ||| | ||| || ||||| |||||| ||| | | ||||| ||| ||||||| || || ||||||| |||||||||||||||||||| || || |||||
gtaacaaaactcttatagcaatctctatacctagttttttttcttctataaaatgcataa---aactttaaatattgaact-actttttttaacctatcagGCGTGTAAGGACGAATATATGGCGGAGTTACGGTGGTGACCGGAGGTTTTATCTCCAACGGCAAAGATTTGCCGGTTACCAGTCAGAAATAGCTCGTTCT
upper sequence: GLYMA12G08530.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv06s0061g00560.t01 (Vitis vinifera), 3'ss of exon 3
tagcaaatttgtcgta-----tttatgaagaaaaagatattctttaattacttgtattttattatt--tatttatttttactgaattt--actgtt-ttaaactttgaagGAAAGTGCGGACGGTGATATGGAGGAAGTTCAACGGTGATCGGCGGTTTTACCTGCAGAGGCAAAGGTTTGCCGGTTACCAGTCAGAGATTGCACGTTCG
| || | || || | || || | || | | | | | |||| | |||| || || ||| || || || | || ||| ||| | |||| ||||||| |||| | ||| | ||| ||||||||| | ||||| |||||||||||||||||||||| || | ||| ||
--gtaatctaatcataaccctctaatcaaactactaatcatgccacctcattaccaatttacccctcatattcataattgtaagtttttaacccttgttctccctttcagGGCTGTGAGAACGGCGATATGGCAAAAGTACGGCGGGAACCGGAAATTTTACCTGAAAAGGCACCGGTTTGCCGGTTACCAGTCAGAAATCGTACGGTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttgtattttattatttatttatttttactgaatttactgttttaaactttgaagGAAAGTGCGGACGGTGATATGGAGGAAGTTCAACGGTGATCGGCGGTTTTACCTGCAGAGGCAAAGGTTTGCCGGTTACCAGTCAGAGATTGCACGTTCG
attttattatttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagcaaatttgtcgtatttatgaagaaaaagatattctttaattacttgtattttattatttatttatttttactgaatttactgttttaaactttgaagGAAAGTGCGGACGGTGATATGGAGGAAGTTCAACGGTGATCGGCGGTTTTACCTGCAGAGGCAAAGGTTTGCCGGTTACCAGTCAGAGATTGCACGTTCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - aagaaaa