Sequence
atgc intronic sequence ATGC exonic sequence...attatctattgaaaaaatatttgtttattattgtcagtgtttttgcatccaagtctatttattacagttttttcccactcaatggaaaatttgtggatagGTGTTCCATGGGGCTGACAATGATATAGTCTGGCTACAGAGGGACTTCCATATATACGTTGTTAGTCTATTTGATATACTTCAAAG
Basic information
species | Glycine max |
transcript | GLYMA12G10530.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G10530.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G32415.1 (Arabidopsis thaliana), 3'ss of exon 3
----------------------------------------attatctattgaaaaaatatttgtttattattgtcagtgtttttgcatccaagtctatttattacagttttttcccactcaatggaaaatt-------------tgtggatagGTGTTCCATGGGGCTGACAATGATATAGTCTGGCTACAGAGGGACTTCCATATATACGTTGTTAGTCTATTTGATATACTTCAAAG
| | ||| || || || | || | | | || | || | || | | ||| | | ||||| ||| || |||||||| || ||||||||||| ||| | ||||||| || || |||||||||||||| ||||||| | | |||||| ||| | |||
gtatattgttcagtgttagaatcttgtaacttaatttgtttcaaatttttggaagaagtcttatgtagcacttgtatgtttctgacaagatgatttagtcccccaaatttctatgtgcattttggaacattaatatgtgattggtgcatctagGTGTTTCACGGGGCTGACAACGATGTTATCTGGCTTCAAAGAGACTTCCATATATATGTTGTTAATATGTTTGAT--ACTGCCAAG
upper sequence: GLYMA12G10530.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv12s0059g00620.t01 (Vitis vinifera), 3'ss of exon 3
attatctattgaaaaaatatttgtttattattgtcagtg--tttttgcatccaagtctatttattacagttttttcccactcaatggaaaatttgtggat--agGTGTTCCATGGGGCTGACAATGATATAGTCTGGCTACAGAGGGACTTCCATATATACGTTGTTAGTCTATTTGATATACTTCAAAG
| ||| || | || ||| || | || |||| | | || |||| | | | | | | ||| |||| |||| ||||||||||||| ||||| |||||| | | ||||| ||||| |||||||||||||| ||||||| |||||||| ||| |||||
--ttgctaagacaagagctctttcttaataacattgatgagttttatttttttaatcactttagtg--atgcagtaatagttggtagaatattttcggatgcagGTGTTCCATGGTGCTGATAATGATGTTTTGTGGCTGCAGAGAGACTTCCATATATATGTTGTTAACTTATTTGAT--ACTGCAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catccaagtctatttattacagttttttcccactcaatggaaaatttgtggatagGTGTTCCATGGGGCTGACAATGATATAGTCTGGCTACAGAGGGACTTCCATATATACGTTGTTAGTCTATTTGATATACTTCAAAG
tatttattacagtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attatctattgaaaaaatatttgtttattattgtcagtgtttttgcatccaagtctatttattacagttttttcccactcaatggaaaatttgtggatagGTGTTCCATGGGGCTGACAATGATATAGTCTGGCTACAGAGGGACTTCCATATATACGTTGTTAGTCTATTTGATATACTTCAAAG
- - - - - -aaaaaat
- - - - - - - - - - - - - - - - - - - - - - gcatcca