Sequence
atgc intronic sequence ATGC exonic sequence...gaaaggaaatataatttgaatttcaacattggatatgattatgccttttagaatatgtctgtttctgttttgaaattattatatatctgctttctctcagGTCAGTCATCATCCAATGATAGTAGCATGTCACTGTGAGGGTACAGGTTGGAAATTTTGGGGAGATAGCAACTTAAAGAGTAAATTTTGGGGTCGGTCAA
Basic information
species | Glycine max |
transcript | GLYMA13G02610.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G02610.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S18_231V6.1 (Physcomitrella patens), 3'ss of exon 6
---------------------------------------------------------------------------------------gaaa---ggaaatat-aatttgaatttcaacattggatatgattatgccttttagaatatgtctgtttc----tgttttgaaattatta---tatatctgctttctctcagGTCAGTCATCATCCAATGATAGTAGCATGTCACTGTGAGGGTACAGGTTGGAAATTTTGGGGAGATAGCAACTTAAAGAGTAAATTTTGGGGTCGGTCAA
|||| | | || | | | || | | | | | |||| |||||| | | ||| | || | |||| || || | ||| | |||||||||| || |||||||||||||| || ||||||||||| ||||| | ||| |||||||||||||| || |||||||| || || || |||||||| || || |
gtgtgatatggtttttgttttcaattgtatgatgcttttttgtgtcttatggacctgtcgcatctattagccttgtagctgaattttgaaatctgtagatgttagtatgtgctccttgtctctctcttattagaaattttagg-tccggctgaaccgaaatgatctgaagttctttgtttttatttttcatctctcagGTGAGCCATCATCCAATGATTGTGGCATGTCACTGCGAGGGCAGAGGCTGGAAATTTTGGGGTGACAGCAACTTGAAAAGCAAGTTTTGGGGCCGTTCTA
upper sequence: GLYMA13G02610.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S67_260V6.1 (Physcomitrella patens), 3'ss of exon 5
gaaaggaaatat-aatttg-aatttcaacattggatatgattatgccttttagaatatgtctgtttct-gttttgaaattattatatatctgctttctct--cagGTCAGTCATCATCCAATGATAGTAGCATGTCACTGTGAGGGTACAGGTTGGAAATTTTGGGGAGATAGCAACTTAAAGAGTAAATTTTGGGGTCGGTCAA
||| |||| |||||| || || | || | | || || | | | ||| | | ||| | | ||| | || | || | ||||| ||||||||||||||||| || |||||||| || ||||| | ||| |||||||| ||||| || ||||| || || || || ||||||||||| ||||
----ggagatattaatttgcaacctctttgtcatatctt-tcgagctttagattaagtaaaagttaatcatcttgcatcttctatctccctacgttgctttgcagGTGAGTCATCATCCAATGATTGTGGCATGTCATTGCGAGGGCAGAGGCTGGAAATTCTGGGGTGACAGCAATTTGAAAAGCAAGTTTTGGGGTCGTTCAA
upper sequence: GLYMA13G02610.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S427_40V6.1 (Physcomitrella patens), 3'ss of exon 5
-----------------------------------------------------gaaaggaaatata-atttgaatttcaacattggatatgattatgc-----cttttagaatatgtctgttt--ctgttttgaaattattatatatctgctttct-----ctcagGTCAGTCATCATCCAATGATAGTAGCATGTCACTGTGAGGGTACAGGTTGGAAATTTTGGGGAGATAGCAACTTAAAGAGTAAATTTTGGGGTCGGTCAA
||| | | || || | | || | || ||| || | || | ||| ||| ||| | |||||| | ||| || | | | ||||| || ||||| |||||||| || ||||||||||| |||||| ||| |||||||| |||||||| |||||||| || || || ||||||||||| || |
gtttgacgcgattgtcattttctattgtttgacaatctcttaggagtctgatggaattgccacatttgttcgcgccgagatgtttctggtacttgtgcttcatctctaaggaattgtaggttggactgaactataattatctgaaatcctctgttttgcggcgcagGTGAGCCATCACCCAATGATCGTGGCATGTCACTGCGAGGGTCGAGGATGGAAATTCTGGGGAGACAGCAACTTGAAAAGCAAGTTTTGGGGTCGTTCTA
upper sequence: GLYMA13G02610.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S40_145V6.1 (Physcomitrella patens), 3'ss of exon 5
gaaaggaaatataatttgaatttcaacattggatatgattatgccttttagaatat---gtctgtttctgttttgaaattattatatatctgctttctct-cagGTCAGTCATCATCCAATGATAGTAGCATGTCACTGTGAGGGTACAGGTTGGAAATTTTGGGGAGATAGCAACTTAAAGAGTAAATTTTGGGGTCGGTCAA
| | | || ||| |||| | |||||| || | || | ||| | |||||| | || | | ||| | || | | ||||||||||||||||||||||| || ||||| || || ||||| | ||| |||| ||| ||||| || |||||||| || || || |||||||| || || |
----ctttaaacatttcgaacttcagaacataatatgagctaattaatttgcatcttccatctctacgtgtttttatttttatttttatttttattttgtacagGTCAGTCATCATCCAATGATTGTTGCATGCCATTGCGAGGGCAGAGGGTGGACATTCTGGGGTGACAGCAACTTGAAAAGCAAGTTTTGGGGCCGTTCTA
upper sequence: GLYMA13G02610.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ15167 (Selaginella moellendorffii), 3'ss of exon 5
gaaaggaaatataatttgaatttcaacattggatatgattatgccttttagaatatgtctgtttctgttttgaaattattatatatctgctttctctcagGTCAGTCATCATCCAATGATAGTAGCATGTCACTGTGAGGGTACAGGTTGGAAATTTTGGGGAGATAGCAACTTAAAGAGTAAATTTTGGGGTCGGTCAA
||| ||| | || | | | | | |||| | || | || | ||| | | ||||||||||| ||||| ||| | ||||| |||||||||||||| || |||||| | ||||| || ||||| ||||||||||||||||||| || ||||
-------------------------------------gtta-gccagtcag--tttttttttctctgctacttgatgctgattt-tcttcgtctgtacagGTCAGTCACCATCCCATGGTGGTAGCCTGTCACTGTGAGGGACGTGGATGGAAACTCTGGGGCGACAGCAATCTAAAGAGTAAATTTTGGGGGCGTTCAA
upper sequence: GLYMA13G02610.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ08416 (Selaginella moellendorffii), 3'ss of exon 6
gaaaggaaatataatttgaatttcaacattggatatgattatgccttttagaatatgtctgtttctgttttgaaattattatatatctgctttctctcagGTCAGTCATCATCCAATGATAGTAGCATGTCACTGTGAGGGTACAGGTTGGAAATTTTGGGGAGATAGCAACTTAAAGAGTAAATTTTGGGGTCGGTCAA
| ||| | | | |||| | || | | | ||| | | ||||||||||| ||||||||| | ||||| |||||||||||||| || |||||| | ||||| || ||||| ||||||||||||||||||| || ||||
------------------------------------------gttagctagtcagcttttttctctgctacttgat-actgattttcttcgtctgtacagGTCAGTCACCATCCAATGGTGGTAGCCTGTCACTGTGAGGGACGTGGATGGAAACTCTGGGGCGACAGCAATCTAAAGAGTAAATTTTGGGGGCGTTCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttagaatatgtctgtttctgttttgaaattattatatatctgctttctctcagGTCAGTCATCATCCAATGATAGTAGCATGTCACTGTGAGGGTACAGGTTGGAAATTTTGGGGAGATAGCAACTTAAAGAGTAAATTTTGGGGTCGGTCAA
tatctgctttctctc CT-rich tract
tgtttctgttttgaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaaaggaaatataatttgaatttcaacattggatatgattatgccttttagaatatgtctgtttctgttttgaaattattatatatctgctttctctcagGTCAGTCATCATCCAATGATAGTAGCATGTCACTGTGAGGGTACAGGTTGGAAATTTTGGGGAGATAGCAACTTAAAGAGTAAATTTTGGGGTCGGTCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
-aaaggaaa
- - - - - - - - - - - - - - - - - - - -tatgcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatctgc