Sequence
atgc intronic sequence ATGC exonic sequence...taatttcactgacaacttgtttttcgtttactatatagttgattaaatgaattcttatatgaaatagtatagcacttccttaaaatatgccttgtttcagTTGTCAGTGTTGGGGCAGCACTTTTCTTGTTCCAGCAGTTGGCTGGAATAAATGCTGTAGTGTATTATTCAACTTCTGTGTTCCGTAGTGCTGGAATTGC
Basic information
species | Glycine max |
transcript | GLYMA13G07780.2 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G07780.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G153704_T01 (Zea mays), 3'ss of exon 13
taatttcactgacaacttgtttttcgtttactatatagttgattaaatgaattcttatatgaaatagtatagcacttccttaaaatatgccttgttt-cagTTGTCAGTGTTGGGGCAGCACTTTTCTTGTTCCAGCAGTTGGCTGGAATAAATGCTGTAGTGTATTATTCAACTTCTGTGTTCCGTAGTGCTGGAATTGC
||| | | ||| || || | | ||| | || | | | || ||| || | | ||||| || ||| ||||||| ||||| ||||||||||| || |||||||||||| | ||||| ||||| ||||| || ||||| || || || |||||||||||||| || |||||
-gttttgatatgtgaattgcattcaacctaaaacgtcaatgaatcgatactgtggtggagaccctacaatacatgttttctgatatatgtctcatttgcagTTGTGAGTGTGGGGGCAGCACTGTTTTTGTTCCAGCAGCTTGCTGGTATAAACGCTGTTGTATATTACTCTACATCGGTGTTCCGTAGTGCAGGCATTGC
upper sequence: GLYMA13G07780.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G098011_T02 (Zea mays), 3'ss of exon 9
taatttcactgacaacttgtttttcgtttac-tatatagttgattaaatgaattcttatatgaaatagtatagcac---ttccttaaaatatgccttgttt-cagTTGTCAGTGTTGGGGCAGCACTTTTCTTGTTCCAGCAGTTGGCTGGAATAAATGCTGTAGTGTATTATTCAACTTCTGTGTTCCGTAGTGCTGGAATTGC
||| | ||| || || || | || | || ||| | || | | | || || | | |||| | ||| ||||||| ||||| ||||||||||| || |||||||||||| | ||||| ||||| ||||| || ||||| || || || |||||||||| ||| || ||| |
-----gttttgatatgttgattgcaaacaacctaaaacgtcaaagaattgatactatggtggagacgccacaagacatgttttctgatatatctttcatttgcagTTGTGAGTGTGGGGGCAGCACTGTTTTTGTTCCAGCAGCTTGCTGGTATAAACGCTGTTGTATATTACTCTACATCGGTGTTCCGTAATGCAGGCATTAC
upper sequence: GLYMA13G07780.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv14s0006g02720.t01 (Vitis vinifera), 3'ss of exon 9
----taatttcactgacaacttgttttt-cgtttactatatagttgattaaatgaattcttatatgaaatagtatagcacttccttaaaatatgc--cttgtttcagTTGTCAGTGTTGGGGCAGCACTTTTCTTGTTCCAGCAGTTGGCTGGAATAAATGCTGTAGTGTATTATTCAACTTCTGTGTTCCGTAGTGCTGGAATTGC
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aggttcaattcccttgcaagttgctgctatacttgcagtcatgctt-tctggtgcaattatgttgaaagcag------atttttatgacacatgcatcttgctgcagTTGTGAGTGTTGGCGCAGCACTTTTCTTGTTCCAACAGTTGGCCGGCATAAATGCTGTGGTGTACTATTCAACATCTGTGTTCCGCAGTGCTGGAATTGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgaattcttatatgaaatagtatagcacttccttaaaatatgccttgtttcagTTGTCAGTGTTGGGGCAGCACTTTTCTTGTTCCAGCAGTTGGCTGGAATAAATGCTGTAGTGTATTATTCAACTTCTGTGTTCCGTAGTGCTGGAATTGC
ccttgtttc CT-rich tract
attcttatatgaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taatttcactgacaacttgtttttcgtttactatatagttgattaaatgaattcttatatgaaatagtatagcacttccttaaaatatgccttgtttcagTTGTCAGTGTTGGGGCAGCACTTTTCTTGTTCCAGCAGTTGGCTGGAATAAATGCTGTAGTGTATTATTCAACTTCTGTGTTCCGTAGTGCTGGAATTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA