Sequence
atgc intronic sequence ATGC exonic sequence...atatgtgattacccaatggtttatatggtgttgagttttaagcaattggcaaaatgtgctaattccttgccttattgtttaacttaatgctatcatgcagGAGGTGGATCCGTGTGAAGACCTGACTGATGATGACATCCGTACTGCCATACAGAATGCTACTGGGCCCAAATCAGCGTTGTTTGTTCCAGAA
Basic information
species | Glycine max |
transcript | GLYMA15G06380.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G06380.1 (Glycine max), 3'ss of exon 9
lower sequence: AT2G14120.3 (Arabidopsis thaliana), 3'ss of exon 10
atatgtgattacccaatggtttatatggtgttgagttttaagcaa-ttggcaaaa-tgtgctaattccttgccttattgtttaacttaatgctatcatgcagGAGGTGGATCCGTGTGAAGACCTGACTGATGATGACATCCGTACTGCCATACAGAATGCTACTGGGCCCAAATCAGCGTTGTTTGTTCCAGAA
||| | | | |||| | || || | || | ||| | | | | ||| | | |||| || ||| | || ||||||| ||||| ||||||||| | || | |||||| || || ||||| ||||| ||||| ||||| |||| ||| || || |||||||||||
---tgttgt-atagagatctttacctactgatgttgtcagtgctacttgataggggtttaatgattttaaactcattagtttctctcaat-ttgctctgaaggagGTTGATCCATGTGAAGACTTAACAGCTGATGATATTCGGACTGCAATACAAAATGCAACTGGTCCCAGATCTGCATTATTTGTTCCAGAT
upper sequence: GLYMA15G06380.1 (Glycine max), 3'ss of exon 9
lower sequence: AT2G14120.2 (Arabidopsis thaliana), 3'ss of exon 9
atatgtgattacccaatggtttatatggtgttgagttttaagcaa-ttggcaaaa-tgtgctaattccttgccttattgtttaacttaatgctatcatgcagGAGGTGGATCCGTGTGAAGACCTGACTGATGATGACATCCGTACTGCCATACAGAATGCTACTGGGCCCAAATCAGCGTTGTTTGTTCCAGAA
| ||| | | | |||| | || || | || | ||| | | | | ||| | | |||| || ||| | || ||||||| ||||| ||||||||| | || | |||||| || || ||||| ||||| ||||| ||||| |||| ||| || || |||||||||||
ctctgttgt-atagagatctttacctactgatgttgtcagtgctacttgataggggtttaatgattttaaactcattagtttctctcaat-ttgctctgaagGAGGTTGATCCATGTGAAGACTTAACAGCTGATGATATTCGGACTGCAATACAAAATGCAACTGGTCCCAGATCTGCATTATTTGTTCCAGAT
upper sequence: GLYMA15G06380.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 10
atatgtgattacccaatggtttatatggtgttgagttttaagcaattggcaaaatgtgctaattccttgccttat-tgtttaacttaatgctatcatgcagGAGGTGGATCCGTGTGAAGACCTGACTGATGATGACATCCGTACTGCCATACAGAATGCTACTGGGCCCAAATCAGCGTTGTTTGTTCCAGAA
|| | | |||| ||||| | | | | | || | | || | ||||| || | | || | || |||||||||||||||| ||||| || |||||||||||||||| || ||||| || |||||||| || || || | ||| || || ||||| ||||||
atggagaacctcacaattttttattggtaaatctgatgtttgctaatttcagagc-tgctatgagctcatcaagtctgaggagatttgaatatctgtgcagGAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttggcaaaatgtgctaattccttgccttattgtttaacttaatgctatcatgcagGAGGTGGATCCGTGTGAAGACCTGACTGATGATGACATCCGTACTGCCATACAGAATGCTACTGGGCCCAAATCAGCGTTGTTTGTTCCAGAA
ttattgtttaacttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atatgtgattacccaatggtttatatggtgttgagttttaagcaattggcaaaatgtgctaattccttgccttattgtttaacttaatgctatcatgcagGAGGTGGATCCGTGTGAAGACCTGACTGATGATGACATCCGTACTGCCATACAGAATGCTACTGGGCCCAAATCAGCGTTGTTTGTTCCAGAA
- - - - -tacccaa
- - - - - - - - - - - - - ggtgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - aatgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttaatgc