Sequence
atgc intronic sequence ATGC exonic sequence...acacttcattggtgatgaacattgcttcattggattttccttcttggaattttcactcaatcgttaaatatgaatgattgttgcttttcttatcacgcagGCTATTGATGCAAGAGATGCTTTGGCGAAGTCAATATATGCTTGTCTGTTTGATTGGTTGGTTGAACAAATAAACCAATCCCTTGCGGTTGGCAAAAGAC
Basic information
species | Glycine max |
transcript | GLYMA20G23660.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G23660.1 (Glycine max), 3'ss of exon 13
lower sequence: AT1G50360.1 (Arabidopsis thaliana), 3'ss of exon 13
------------------------------------------------------------------------acacttcattggtgatgaacattgcttcattggattttccttcttggaattttcactcaatcgttaaatatga--atgattgttgcttttcttatcacgcagGCTATTGATGCAAGAGATGCTTTGGCGAAGTCAATATATGCTTGTCTGTTTGATTGGTTGGTTGAACAAATAAACCAATCCCTTGCGGTTGGCAAAAGAC
| | | | |||| | ||| | | || | | ||||||| || || || | | | ||| ||| | || || | ||||| ||||| |||||||||||||| || |||||||| ||||| || || ||||| ||| | |||||||| || ||| |||| |||||||| || || ||
gtaggccttttagaaagattttttttttcacttgattctttgtgtgtacttttattctgagtagggttggttttaacactgtaatcatgatctatgccccctc----ttacttatttggaatcaagccttgttcatttatttttgtggtgaaagtttttcttatttgcttccagGCCATTGACGCAAGAGATGCTTTAGCAAAGTCAATCTATGCCTGCCTATTTGACTGGCTAGTTGAACAGATTAACAAATCTCTTGCGGTGGGAAAGAGGA
upper sequence: GLYMA20G23660.1 (Glycine max), 3'ss of exon 13
lower sequence: AT3G19960.1 (Arabidopsis thaliana), 3'ss of exon 13
-------acacttcattggtgatgaacattgcttcattggattttccttcttggaattttcactcaatcgttaaatatgaatgattgttgcttttcttatcacgcagGCTATTGATGCAAGAGATGCTTTGGCGAAGTCAATATATGCTTGTCTGTTTGATTGGTTGGTTGAACAAATAAACCAATCCCTTGCGGTTGGCAAAAGAC
| | | | || || |||| | || | | | | ||| |||| | || ||| || | |||| | ||||| || | ||||| |||||||||||||||||||| || || ||||| ||| | || |||||||| ||| |||||||||| || ||| |||| ||||| || || || || |
agacttttaattcctccgaagacgatgattgtatttttag--tcccgtccttc---ttttactttaaattttacattttcttgatatt--ctttttttttttttcagGCCATTGATGCAAGAGATGCTTTAGCAAAATCAATCTATTCGTGCCTGTTTGACTGGCTGGTTGAACAGATCAACAAATCTCTTGCTGTGGGAAAGAGGC
upper sequence: GLYMA20G23660.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 12
acacttcattggtgatgaacattgcttca-ttggattttccttcttgga-attttcactcaatcgttaaatatga--atgattgttgctt-ttcttatcacgcagGCTATTGATGCAAGAGATGCTTTGGCGAAGTCAATATATGCTTGTCTGTTTGATTGGTTGGTTGAACAAATAAACCAATCCCTTGCGGTTGGCAAAAGAC
| | |||| | | | | |||||| | | ||| |||| | || | ||||| || || ||| || | || ||||| ||||| ||||||||||||||||||| ||||| ||||||||| | ||||| ||| |||| |||||||| ||| | || ||||| || || ||| | |
-----gtctaatttttgaatttggagtaacttggataaaattccacggatatttgtaagacattttcccctatgattattatcaaatcttgttttcgtcttccagGCCATTGACACAAGAGATGCTTTGGCGAAATCAATTTATGCTTGTTTATTTGACTGGCTGGTCGAACAAATCAACAAGTCACTTGCTGTAGGAAAACGGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggaattttcactcaatcgttaaatatgaatgattgttgcttttcttatcacgcagGCTATTGATGCAAGAGATGCTTTGGCGAAGTCAATATATGCTTGTCTGTTTGATTGGTTGGTTGAACAAATAAACCAATCCCTTGCGGTTGGCAAAAGAC
ttgttgcttttctt CT-rich tract
ttaaatatgaatgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acacttcattggtgatgaacattgcttcattggattttccttcttggaattttcactcaatcgttaaatatgaatgattgttgcttttcttatcacgcagGCTATTGATGCAAGAGATGCTTTGGCGAAGTCAATATATGCTTGTCTGTTTGATTGGTTGGTTGAACAAATAAACCAATCCCTTGCGGTTGGCAAAAGAC
-cacttca
- - - - - ggtgatg
- - - - - - - - - - - tgcttca
- - - - - - - - - - - - - - - - - - - ccttctt
- - - - - - - - - - - - - - - - - - - - - - - - - - tcactca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgaatga