Sequence
atgc intronic sequence ATGC exonic sequence...agtctggtcagagcacaaataaaagttgttatattattcaagatcatttatttgaaggattatattggtatttattttatacttcaactactttttttagGTATGTTCATAGTTACCAAAGCTATTTATGGAACCATGCTGCAAGTAAGAGGGTGCAAAAATATG
Basic information
species | Glycine max |
transcript | GLYMA19G43270.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G43270.1 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os01g56620.1 (Oryza sativa), 3'ss of exon 11
-----------------------agtctggtcagagc-----acaaataaaagt--tgttatattattcaagatcatttatttgaaggattatattggtatttattttat-acttcaactactttttttagGTATGTTCATAGTTACCAAAGCTATTTATGGAACCATGCTGCAAGTAAGAGGGTGCAAAAATATG
| | || |||| ||| | ||| | ||| || || | | | | || | | || | | || |||| | | | || | | || |||||||| ||||||||||| || || |||||||||||||||||||||| ||| || ||||| ||||
gtatgttatgttcaatatctgaaattttgtctagagattccaacacctgaaattaatgtaattttccttatttacgacaaatttaggctatacaattctacatattaagttgttctgattattctattcagGTATGTGCATAGTTACCAGAGTTACTTATGGAACCATGCTGCAAGTATGAGAGTTCAAAAGTATG
upper sequence: GLYMA19G43270.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G459702_T01 (Zea mays), 3'ss of exon 11
agtctggtcagagcacaaataaaagttgttat-attattcaagatcatttatttgaaggattatattg-gtatttattttatacttcaactactttttttagGTATGTTCATAGTTACCAAAGCTATTTATGGAACCATGCTGCAAGTAAGAGGGTGCAAAAATATG
| | | | |||| | || | | || | | | ||| ||| ||| | | | | | | | | | | | |||||||| ||||| ||||| || || |||||||| ||||||||||||| ||| ||| |||| ||||
--tgtaagaaactagtattcaaaatctattgtcagaatatattgttagggcttttcgtatttactttgtgctctggtactccaatggatccatgctgtgcagGTATGTACATAGCTACCAGAGTTACTTATGGAATCATGCTGCAAGTATGAGAGTGGAAAAGTATG
upper sequence: GLYMA19G43270.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv14s0030g01850.t01 (Vitis vinifera), 3'ss of exon 7
---agtctggtcagagcacaaataaaag-ttgttatattattcaagatcatttatttgaaggattatattggtatttattttatacttcaactactttttttagGTATGTTCATAGTTACCAAAGCTATTTATGGAACCATGCTGCAAGTAAGAGGGTGCAAAAATATG
| | | || || | | | | | | || | | |||| | | ||| | ||||||| || |||||||| |||||||| |||||||||||||||||| | ||||||||||| || |||| ||| |||||||| ||||
agaaatgagaggtgaatacttcttttcgactcctgtggacatgaaactttgtgattttagacttccaatt--tgaccattttattctggttctactttt--cagGTATGTACATAGTTACCAAAGCTATCTGTGGAACCATGCAGCTAGTATGAGAGTGCAAAACTATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttatttgaaggattatattggtatttattttatacttcaactactttttttagGTATGTTCATAGTTACCAAAGCTATTTATGGAACCATGCTGCAAGTAAGAGGGTGCAAAAATATG
ctacttttttt CT-rich tract
tatttattttatactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agtctggtcagagcacaaataaaagttgttatattattcaagatcatttatttgaaggattatattggtatttattttatacttcaactactttttttagGTATGTTCATAGTTACCAAAGCTATTTATGGAACCATGCTGCAAGTAAGAGGGTGCAAAAATATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - gcacaaa