Sequence
atgc intronic sequence ATGC exonic sequence...ggtgttatctaaggagatttttcgttattgtgttgtgattatcaattttgttcttacaaattagagtcattagtaacaaatgttttatttgatgatttagGGTCCGAAAGTTTCATATGGCAACCCTAAACTCTTCAAGAACTTCATCAGGGTACTTTGTAATGCTAACACCTCAGAAGGATTCCTACCTAACAAAGATG
Basic information
species | Glycine max |
transcript | GLYMA17G11870.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G11870.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G33290.1 (Arabidopsis thaliana), 3'ss of exon 3
ggtgttatctaaggagatttttcgttattgtgttgtga---ttatcaattttgttcttacaaattagagtcattagtaacaaatgttttatttgatgatttagGGTCCGAAAGTTTCATATGGCAACCCTAAACTCTTCAAGAACTTCATCAGGGTACTTTGTAATGCTAACACCTCAGAAGGATTCCTACCTAACAAAGATG
| | || | | || | |||| | | || |||||| | ||| | | || | | | | | | | | || | |||| || | || |||| || || || | || | || ||||| |||| |||||| |||||||||||||| ||||| |||| ||||||| || |
-gcttgattctattaatttgattaatattatatcaagaaaattatcatctaaattcctg--atttttttttaatgaatatgatttacatttgtgtgtgtatagGCACCAGACGTGATTGATGGGAATCCAAAGTTGTTTGAAAAATTCATTAGGGGACTTTGCAATGCTAACACCTCGGAAGGTTTCCGACCTAACGTGGACG
upper sequence: GLYMA17G11870.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv11s0118g00170.t01 (Vitis vinifera), 3'ss of exon 3
-ggtgttatctaaggagatttttcgttattgtgttgtgattatcaattttgttct-tacaaattagagtcattagtaacaaatgttttatttgatgatttagGGTCCGAAAGTTTCATATGGCAACCCTAAACTCTTCAAGAACTTCATCAGGGTACTTTGTAATGCTAACACCTCAGAAGGATTCCTACCTAACAAAGATG
||| | | || || || | | || ||||||| ||| | | | ||| | | | | | ||| | ||||| || ||| || |||||||||| |||||| | || |||||||| ||||||||||| ||||| ||||| |||| ||||||||||||| || | |||||
aagtgaaacaaatatggacccatcattttcctttt-tgattatggcatttatcatacattcatttggtgtctgaatt-cttccctttaacttgatatttcagGCGCCATCCGTTTCATATGCAAACCCTGAGCTATTCAAGAATTTCATCAGGGTCCTTTGCAATGCAAACAGCTCAGAAGGATTCAGGCCAGGAAGAGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgttcttacaaattagagtcattagtaacaaatgttttatttgatgatttagGGTCCGAAAGTTTCATATGGCAACCCTAAACTCTTCAAGAACTTCATCAGGGTACTTTGTAATGCTAACACCTCAGAAGGATTCCTACCTAACAAAGATG
attagtaacaaatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtgttatctaaggagatttttcgttattgtgttgtgattatcaattttgttcttacaaattagagtcattagtaacaaatgttttatttgatgatttagGGTCCGAAAGTTTCATATGGCAACCCTAAACTCTTCAAGAACTTCATCAGGGTACTTTGTAATGCTAACACCTCAGAAGGATTCCTACCTAACAAAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
ggtgtta
- - - - - - - - - - - - - - - tgttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtaacaaa