Sequence
atgc intronic sequence ATGC exonic sequencegtaagtagtatatgtatatctgtcattacgaaaaatgaacatttgatgtaataggatttgtttgattcgaccccgccccccctcccccccggcaaaagttgaacttcggatttggattatgaccatcatttactcaatggctgtagGATGTCAAATTGTTAATTGATGATGTTGGGGAACTAAAACCAACTATTTTCTGTGCTGTTCCCCGTGTGCTTGATAGAGTGTACTCAG
Basic information
species | Glycine max |
transcript | GLYMA11G02030.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G02030.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os01g46750.4 (Oryza sativa), 3'ss of exon 7
gtaagtagtatatgtatatctgtcattacgaaaaatgaacatttgatgtaataggatttgtttgattcgaccccgccccccctcccccccggcaaaagttgaacttcggatttggattatgaccatcatttactcaatggctgtagGATGTCAAATTGTTAATTGATGATGTTGGGGAACTAAAACCAACTATTTTCTGTGCTGTTCCCCGTGTGCTTGATAGAGTGTACTCAG
| | | || ||| | |||| || || | | ||||| ||| ||| | | | | ||||||| || || | |||| ||| ||||| ||| ||||||||||| || ||||||||||| ||||||||||| | | | || |
------------------------------------------------------------gtaagcaccgttacatgtttactgatccctcttggattttgattttttgaacctg-tgatgactatc--ttaaaaatttggttcagGATGTTAAGCTGCTTGTTGAAGATATTGGGACACTGAAACCAACTATCTTGTGTGCTGTTCCACGTGTGCTTGACCGGATATTTTCTG
upper sequence: GLYMA11G02030.1 (Glycine max), 3'ss of exon 10
lower sequence: AT4G23850.1 (Arabidopsis thaliana), 3'ss of exon 10
gtaagtagtatatgtatatctgtcattacgaaaaatgaacatttgatgtaataggatttgtttgattcgaccccgccccccctcccccccggcaaaagttgaacttcggatttggattatgaccatcatttactcaatggctgtagGATGTCAAATTGTTAATTGATGATGTTGGGGAACTAAAACCAACTATTTTCTGTGCTGTTCCCCGTGTGCTTGATAGAGTGTACTCAG
| | | || | || | | | ||||| | | | | ||| | || | | | ||||||| |||||||| || || || ||| || || |||||||||||||| |||||||| || ||||| || |||||||| |||||||
-------------------------------------------------------------gtcagtagagtttgaacctttttattta-aaccagttttgaattcctcact-----tataattctc-tccgggttgtctcctcagGATGTAAAATTGTTGATCGAAGACCTTGCTGAGCTTAAACCAACTATTTTTTGTGCTGTACCTCGTGTCCTGGATAGAGTATACTCAG
upper sequence: GLYMA11G02030.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv02s0025g01410.t01 (Vitis vinifera), 3'ss of exon 10
gtaagtagtatatgtatatctgtcattacgaaaaatgaacatttgatgtaataggatttgtttgattcgaccccgccccccctcccccccggcaaaagttgaacttcggatttggattatgaccatcatttactcaatggctgtagGATGTCAAATTGTTAATTGATGATGTTGGGGAACTAAAACCAACTATTTTCTGTGCTGTTCCCCGTGTGCTTGATAGAGTGTACTCAG
|||| | | | || | || || | | ||| || | | | |||| |||||| | | | | ||||||||||||| || |||| || ||||||| |||||||| |||||||||||||||||||| || || | ||||| | || ||||
-----------------------------------------------gtaagacagctaatgcatttt--------ttttcttctcctcgaatcagtgttcaatatagtaattgg----------tcatttgcccca--atttcagGATGTCAAATTATTGGTTGAAGACATTGGGGAGCTAAAACCGACTATTTTCTGTGCTGTTCCTCGCGTATTAGATAGGATATATTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcaaaagttgaacttcggatttggattatgaccatcatttactcaatggctgtagGATGTCAAATTGTTAATTGATGATGTTGGGGAACTAAAACCAACTATTTTCTGTGCTGTTCCCCGTGTGCTTGATAGAGTGTACTCAG
atcattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtagtatatgtatatctgtcattacgaaaaatgaacatttgatgtaataggatttgtttgattcgaccccgccccccctcccccccggcaaaagttgaacttcggatttggattatgaccatcatttactcaatggctgtagGATGTCAAATTGTTAATTGATGATGTTGGGGAACTAAAACCAACTATTTTCTGTGCTGTTCCCCGTGTGCTTGATAGAGTGTACTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT