Sequence
atgc intronic sequence ATGC exonic sequencegtaaagatctttcctagggaactctgaaaaattaagatccttggtattggataataattgtaaccatttcttagGTCTTTCTAATAAATGCAGCTGACCCATTGTCTGGCTTGAAACTAGTTTGGGAGTGTGATGTTCTAGCTCACTGCATAATTGAACATCACCGAGGTTACC
Basic information
species | Glycine max |
transcript | GLYMA16G26000.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G26000.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G66960.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaaagatctttcctagggaact-ctgaaaaattaagatcct--tggtattggataat----aattgtaac------catttcttagGTCTTTCTAATAAATGCAGCTGACCCATTGTCTGGCTTGAAACTAGTTTGGGAGTGTGATGTTCTAGCTCACTGCATAATTGAACATCACCGAGGTTACC
|| || | | | || || || ||| || || | | || | ||| || | ||| |||| || |||||||||||||| |||||||||||||||||||| ||||| ||| | | |||||||| ||| || ||| ||||||||||| || ||||| | || | ||
gtgaaagc--tccaaattgatctgctaaaagctttagtttttattgtttttgaatgacttgaaatcataacaagtactatgtcttagGTCTTTCTGATAAATGCAGCTGACCCATTTTCTGGTTTGGCATTGGTTTGGGAACACAATGCTCCAGCCCACTGCATAATCGAGCATCATCAGGGATTCC
upper sequence: GLYMA16G26000.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv07s0255g00060.t01 (Vitis vinifera), 3'ss of exon 4
--------gtaaagatctttcctagggaactctgaaaaatta---agatccttggtattgg------ataataattgtaaccatttcttagGTCTTTCTAATAAATGCAGCTGACCCATTGTCTGGCTTGAAACTAGTTTGGGAGTGTGATGTTCTAGCTCACTGCATAATTGAACATCACCGAGGTTACC
| | ||| |||| | | ||| | | ||| | || ||| || ||| |||| || ||| ||||||||| || |||||||||||||| || ||||||||| ||| | |||| |||||||||| | | ||| ||||||||| |||| || || | || | ||
gtattaatttgcaagcattttctagttgatatttgcaaactgtctacatctattctagtggggctgtattatatttgtgacaattctttagGTCTTCCTCATAAATGCAGCTGATCCTTTGTCTGGCATGACATTAGTATGGGAGTGTGGAGGACAAGCCCACTGCATAGTTGAGCACCATCAGGGATGCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aactctgaaaaattaagatccttggtattggataataattgtaaccatttcttagGTCTTTCTAATAAATGCAGCTGACCCATTGTCTGGCTTGAAACTAGTTTGGGAGTGTGATGTTCTAGCTCACTGCATAATTGAACATCACCGAGGTTACC
ttgtaac putative branch site (score: 2)
ccatttctt CT-rich tract
tattggataataatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaagatctttcctagggaactctgaaaaattaagatccttggtattggataataattgtaaccatttcttagGTCTTTCTAATAAATGCAGCTGACCCATTGTCTGGCTTGAAACTAGTTTGGGAGTGTGATGTTCTAGCTCACTGCATAATTGAACATCACCGAGGTTACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA