Sequence
atgc intronic sequence ATGC exonic sequence...tatccttgtaattttatttacctcaatttgttatgttgatattgatgaggttggttttgtttgcgtgatgctgtaatatgctgaaaaacttgtaattcagGGACACCATTTTTCTCTCTTACAACATGAGACTGAGAAGCTTAGGAATGATATAGAGAAGATGCGTAGTGAGCTGAG
Basic information
species | Glycine max |
transcript | GLYMA17G17170.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G17170.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv04s0023g02920.t01 (Vitis vinifera), 3'ss of exon 3
----tatccttgtaattttatttacctcaatttgttatgttgatattgatgaggttggttttgtttgcgtgatgctgtaa-tatgctgaaaaacttgtaattcagGGACACCATTTTTCTCTCTTACAACATGAGACTGAGAAGCTTAGGAATGATATAGAGAAGATGCGTAGTGAGCTGAG
| |||||| || | | ||||| | | | | || | || || | | | | | || || | ||| ||||||| |||||||||||||| |||||||| |||||||| ||| | | ||||||||| |||||||||||||| || ||
ttatttattttgtaaaactagatcttcttaattgttttttcatttaaactatagtagcagttcaatgtcaagtattttgactctgtctcaaca-----aatgtagGGACATCATTTTTCTCTCTTGCAACATGAAACTGAGAAACTTCGAAGTGATATAGAAAAGATGCGTAGTGAACTAAG
upper sequence: GLYMA17G17170.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv04s0023g02930.t01 (Vitis vinifera), 3'ss of exon 4
tatccttgtaattttatttacctcaatttgttatgttgatattgatgaggttggttttgtt-tgcgtgatgctgtaa-tatg-ctgaaaaacttgtaattcagGGACACCATTTTTCTCTCTTACAACATGAGACTGAGAAGCTTAGGAATGATATAGAGAAGATGCGTAGTGAGCTGAG
|||||| || | | ||| | | || || | | | | | ||| || || | | | | || || || || |||| |||||||| ||||||||| |||| |||||||| |||||||| ||| | | ||||||||| |||||||||||||| || ||
--attttgtaaaactagattttcttaattgct-ttttcatttaaactatagtagcagtgtcatgtaaaatattttgactctgtctcaacaaacaataatgcagGGACATCATTTTTCTGTCTTGCAACATGAAACTGAGAAACTTCGAAGTGATATAGAAAAGATGCGTAGTGAACTAAG
upper sequence: GLYMA17G17170.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv04s0023g02550.t01 (Vitis vinifera), 3'ss of exon 3
tatccttgtaattttatttacctcaatt--tgttatgttgatattgatgaggttggttttgtttgcgtgatgctgtaatatgctgaaaaacttgtaattcagGGACACCATTTTTCTCTCTTACAACATGAGACTGAGAAGCTTAGGAATGATATAGAGAAGATGCGTAGTGAGCTGAG
|| | || | || || |||| | || || | | | || ||| | | | || || || || || |||| |||||||| |||||||||||||| |||||||| ||| |||| ||| | |||||| || || |||| || | |||| ||
-attttgtaaaactagattttcttaattgttttttcatttaaact-atagtagcagttccatgtcaggtattttgactctgtctcaacaaacaataatgcagGGACATCATTTTTCTCTCTTGCAACATGAAACTAAGAAACTTCAAAGTGATATGGAAAAAATGCATAATAAGCTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaggttggttttgtttgcgtgatgctgtaatatgctgaaaaacttgtaattcagGGACACCATTTTTCTCTCTTACAACATGAGACTGAGAAGCTTAGGAATGATATAGAGAAGATGCGTAGTGAGCTGAG
aaaaacttgtaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatccttgtaattttatttacctcaatttgttatgttgatattgatgaggttggttttgtttgcgtgatgctgtaatatgctgaaaaacttgtaattcagGGACACCATTTTTCTCTCTTACAACATGAGACTGAGAAGCTTAGGAATGATATAGAGAAGATGCGTAGTGAGCTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- -ccttgta
- - - - - - - - - -acctcaa
- - - - - - - - - - - - - - tgttatg
- - - - - - - - - - - - - - - - - - - - - - - gaggttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctgaa