Sequence
atgc intronic sequence ATGC exonic sequence...attaaccgggattcttcaaccacgtgttatcctttcattttttgcccccattacacgttattcatctttttcctttattcctttttttcatctcatgcagTCAGGGTGCTGCAAGCCACCAACAAAATGTGGTTACACGTTTGTGAATCCAACGTATTGGATTAGCCCTATCAACACGGCAGTAGACATGGATTGCATGA
Basic information
species | Glycine max |
transcript | GLYMA01G11130.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G11130.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G46700.1 (Arabidopsis thaliana), 3'ss of exon 1
------attaaccgggattcttcaaccacgtgttatcctttcattttttgcccccattacacgttattcatctttttcctttattcctttttttcatctcatgcagTCAGGGTGCTGCAAGCCACCAACAAAATGTGGTTACACGTTTGTGAATCCAACGTATTGGATTAGCCCTATCAACACGGCAGTAGACATGGATTGCATGA
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agattcttccactatgtgcacttaatcagtcacgccgaactacttttttggcccca----atattttatattatttaaatttaaccccatttctttact--ttcagTCTGGTTGCTGCAAGCCCCCAACAAAATGTGGATTCACATTTGTTAATCCTACTTATTGGATAAGTCCCATAGATATGTCTGCTGATATGGATTGTCTAA
upper sequence: GLYMA01G11130.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv02s0012g01410.t01 (Vitis vinifera), 3'ss of exon 1
--attaaccgggattcttcaaccacgtgttatcctttcattttttgcccccattacacgttattcatctttttcctttattcctttttttcatctcatgcagTCAGGGTGCTGCAAGCCACCAACAAAATGTGGTTACACGTTTGTGAATCCAACGTATTGGATTAGCCCTATCAACACGGCAGTAGACATGGATTGCATGA
| ||||| ||||||| |||||| ||| | || ||| | || | | || ||||||| | | || ||||| || | | ||||| || ||||| ||||||||||| |||| || ||||| ||||||||||| | |||||||||||||| || |||| |||| |||||||||||| ||
agaagcgtaaagattcctcaaccatgtgttaatctt-ctttctttccaagtatggttcatc-tttatcttttatttcttttgcttttcttttttctttacagTCGGGATGCTGTAAGCCACCAACTGAATGCGGGTACACCTTTGTGAATCCGAGCTATTGGATTAGCCCCATATACACAGCAGCGGACATGGATTGCCTGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccccattacacgttattcatctttttcctttattcctttttttcatctcatgcagTCAGGGTGCTGCAAGCCACCAACAAAATGTGGTTACACGTTTGTGAATCCAACGTATTGGATTAGCCCTATCAACACGGCAGTAGACATGGATTGCATGA
cgttattcatcttttt CT-rich tract
tttattccttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attaaccgggattcttcaaccacgtgttatcctttcattttttgcccccattacacgttattcatctttttcctttattcctttttttcatctcatgcagTCAGGGTGCTGCAAGCCACCAACAAAATGTGGTTACACGTTTGTGAATCCAACGTATTGGATTAGCCCTATCAACACGGCAGTAGACATGGATTGCATGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - caaccac
- - - - - - - - - - - - - - - cctttca
- - - - - - - - - - - - - - - - - - - - - - cccccat