Sequence
atgc intronic sequence ATGC exonic sequence...ttgtttgttatcctattagtcatttgattgcctgttatttgctgcagtgcattattttctactcattacaaatacgaatgtgattctagttaaatttcagTCTATCCCATATCCAGTTTTTCCTGGAGGAGCAATTATTGGATGTTCAGCTGGCTTCATGAATGTGCCAAAGATAAAGGGAACTCACACGGCAATGAAAT
Basic information
species | Glycine max |
transcript | GLYMA15G03360.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G03360.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os10g37210.1 (Oryza sativa), 3'ss of exon 10
---ttgtttgttatcctattagtcatttgattgcctgttatttgctgcagtgcattattttctactcattacaaatacgaatgtgattctagttaaatttcagTCTATCCCATATCCAGTTTTTCCTGGAGGAGCAATTATTGGATGTTCAGCTGGCTTCATGAATGTGCCAAAGATAAAGGGAACTCACACGGCAATGAAAT
| || || | | || | | |||| | | | || | | | |||| || | | || ||| || ||||||||||| || ||| |||||||||| |||||||| |||||||||||||| || || || ||| | ||||| || || ||||| |||||||| || || ||||| |
tttacctccgtcattcagtcaggtctcctgtattttgttttctttagttgt-tagcaatagttactgatag--ggtgctgataatgttcatgtaaaatttcagTCAATACCAAATCCAGTTTTCCCTGGAGGTGCAATTATTGGATGCTCTGCAGGGTTCCTTAATGTTCCCAAAATAAAAGGAACTCATACAGCCATGAAGT
upper sequence: GLYMA15G03360.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G032222_T03 (Zea mays), 3'ss of exon 10
-ttgtttgttatcctattagtcatttgattgcctgttatttgctgcagtgcattattttctactcattacaaatacgaatgtgat----tctagttaaatttcagTCTATCCCATATCCAGTTTTTCCTGGAGGAGCAATTATTGGATGTTCAGCTGGCTTCATGAATGTGCCAAAGATAAAGGGAACTCACACGGCAATGAAAT
| | | || || | | | || | || || || | | | || || | | | | ||||| || |||| || || ||||||||||| || ||||||||| |||| |||||||| |||||||||||||| || || || || | ||||| || || ||||| ||||| || || || |||||||
ctcttctcttctcttctcttttatct-atgaaatgatactca----aatcgttttttgtgttcgagaaaaaaatatgataatgatgggctcatgtaaaatttcagTCAATACCATATCCAATTTTCCCTGGAGGTGCAATTATTGGATGCTCTGCAGGATTTCTAAATGTTCCCAAAATAAAAGGAACCCATACAGCTATGAAAT
upper sequence: GLYMA15G03360.1 (Glycine max), 3'ss of exon 10
lower sequence: AT2G43400.1 (Arabidopsis thaliana), 3'ss of exon 10
ttgtttgttatcctattagtcatttgattgcctgttatttgctgcagtgcattattttctac---tcattacaaatacgaatgtgattctagttaaatttcagTCTATCCCATATCCAGTTTTTCCTGGAGGAGCAATTATTGGATGTTCAGCTGGCTTCATGAATGTGCCAAAGATAAAGGGAACTCACACGGCAATGAAAT
||| | | | || | || | || | | | | | | | || || | || ||| || ||| |||| ||||| ||||||||||| || || |||||||||||||||||||||||||| ||||||||||||||||| || | ||||| || ||||| |||||||| ||||| ||||||||||
---attgagaaataagatttgatctagttaaccctttatgacagaaataagatttgtttgacatgttatgacatatttgaacttgatgctagtaaaatttcagTCCATTCCCTATCCAGTTTTTCCTGGAGGAGCAATAATTGGATGTTCAGCTGGTTTTCTCAATGTACCCAAGATTAAGGGAACACACACTGCAATGAAAT
upper sequence: GLYMA15G03360.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv05s0102g01110.t01 (Vitis vinifera), 3'ss of exon 10
ttgtttgttatcctattagtcatttgattgcctgttatttgctgcagtgcattattttctactc-attacaaatacgaatgtgattcta-gttaaatttcagTCTATCCCATATCCAGTTTTTCCTGGAGGAGCAATTATTGGATGTTCAGCTGGCTTCATGAATGTGCCAAAGATAAAGGGAACTCACACGGCAATGAAAT
| ||| ||| | | | || | || | | || | | || || | || ||||||| |||| |||| ||| ||||||||||||||||| |||||||||||||| || || |||||||| |||||||| |||||||||||| | || || ||||||||||||||||| || || ||||||||||
-ttcatgtcttcccaa-aatgtttcaagtgttcatatgatttgattgtagaattttcagtattttataacaaatatgaatatgatgctaagttaaatttcagTCTATTCCATATCCAGTTTTCCCAGGTGGAGCAATCATTGGATGCTCAGCTGGCTTCCTAAACGTCCCAAAGATAAAGGGAACACATACTGCAATGAAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtgcattattttctactcattacaaatacgaatgtgattctagttaaatttcagTCTATCCCATATCCAGTTTTTCCTGGAGGAGCAATTATTGGATGTTCAGCTGGCTTCATGAATGTGCCAAAGATAAAGGGAACTCACACGGCAATGAAAT
attctagttaaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgtttgttatcctattagtcatttgattgcctgttatttgctgcagtgcattattttctactcattacaaatacgaatgtgattctagttaaatttcagTCTATCCCATATCCAGTTTTTCCTGGAGGAGCAATTATTGGATGTTCAGCTGGCTTCATGAATGTGCCAAAGATAAAGGGAACTCACACGGCAATGAAAT
-tgtttgt
- - - - - - - - - - - - tgattgc
- - - - - - - - - - - - - - - - - - - ttgctgc
- - - - - - - - - - - - - - - - - - - - - - - -tgcatta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaatgtg