Sequence
atgc intronic sequence ATGC exonic sequence...tggtagaatgtaggttcaataccttgaatgatttggaaatagatgtttataatgattttttttctttccaaatatcttaaatattttttttttcttgcagGCAATTGATGCAAGAGATGCTTTGGCAAAGTCAATATATGCATGCCTGTTTGATTGGTTGGTTGAACAGATAAATAAATCACTTGCTGTTGGCAAAAGAC
Basic information
species | Glycine max |
transcript | GLYMA09G42180.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G42180.1 (Glycine max), 3'ss of exon 11
lower sequence: AT1G50360.1 (Arabidopsis thaliana), 3'ss of exon 13
----------------------------------------------------------tggtagaatgtaggttcaataccttga--atgatttggaaa------tagatgtttataatga--ttttttttctttccaaatatcttaaatatttttttttt---cttgcagGCAATTGATGCAAGAGATGCTTTGGCAAAGTCAATATATGCATGCCTGTTTGATTGGTTGGTTGAACAGATAAATAAATCACTTGCTGTTGGCAAAAGAC
|||| | | | || || || | | ||||| | || | ||| ||| | || || ||| | | | || ||||| || | ||| ||||| ||||| |||||||||||||| ||||||||||| ||||| ||||| ||||| ||| | ||||||||||| || ||||| ||||| || || || ||
gtaggccttttagaaagattttttttttcacttgattctttgtgtgtacttttattctgagtagggt-tggttttaacactgtaatcatgatctatgccccctcttacttatttggaatcaagccttgttcatttatttttgtggtgaaagtttttcttatttgcttccagGCCATTGACGCAAGAGATGCTTTAGCAAAGTCAATCTATGCCTGCCTATTTGACTGGCTAGTTGAACAGATTAACAAATCTCTTGCGGTGGGAAAGAGGA
upper sequence: GLYMA09G42180.1 (Glycine max), 3'ss of exon 11
lower sequence: AT3G19960.1 (Arabidopsis thaliana), 3'ss of exon 13
tggtagaatgtaggttc-----aataccttgaatg-atttggaaatagatgtttataatgattttttttctttccaaatatcttaaatattttttttttcttgcagGCAATTGATGCAAGAGATGCTTTGGCAAAGTCAATATATGCATGCCTGTTTGATTGGTTGGTTGAACAGATAAATAAATCACTTGCTGTTGGCAAAAGAC
||| | | ||| || || ||| || |||| | | || | | ||| || || || | | | || ||||||||| || ||||| |||||||||||||||||||| ||||| ||||| ||| | ||||||||||| ||| ||||||||||||| || ||||| |||||||| || || || |
----agacttttaattcctccgaagacgatgattgtatttttagtcccgtccttcttttactttaaatt--ttacattttcttgatattctttttttttttttcagGCCATTGATGCAAGAGATGCTTTAGCAAAATCAATCTATTCGTGCCTGTTTGACTGGCTGGTTGAACAGATCAACAAATCTCTTGCTGTGGGAAAGAGGC
upper sequence: GLYMA09G42180.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 12
tggtagaatgtaggttc--aataccttgaatgatttggaaatagatgtttataatgattttttttctttccaaatatcttaaatattttttttttcttgcagGCAATTGATGCAAGAGATGCTTTGGCAAAGTCAATATATGCATGCCTGTTTGATTGGTTGGTTGAACAGATAAATAAATCACTTGCTGTTGGCAAAAGAC
|| | | || | || |||| || | | | ||| ||| ||| || |||| | | | | | |||| || |||| |||| ||||| ||||| |||||||||||||||| || ||||| ||||| || | ||||| ||| |||| ||||| || || || ||||||||||| || ||| | |
gtctaatttttgaatttggagtaacttggataaaattcca-cggatatttgtaa-gacattttcccctatgattattatcaaatcttgttttcgtcttccagGCCATTGACACAAGAGATGCTTTGGCGAAATCAATTTATGCTTGTTTATTTGACTGGCTGGTCGAACAAATCAACAAGTCACTTGCTGTAGGAAAACGGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttataatgattttttttctttccaaatatcttaaatattttttttttcttgcagGCAATTGATGCAAGAGATGCTTTGGCAAAGTCAATATATGCATGCCTGTTTGATTGGTTGGTTGAACAGATAAATAAATCACTTGCTGTTGGCAAAAGAC
tattttttttttcttg CT-rich tract
attttttttctttcca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggtagaatgtaggttcaataccttgaatgatttggaaatagatgtttataatgattttttttctttccaaatatcttaaatattttttttttcttgcagGCAATTGATGCAAGAGATGCTTTGGCAAAGTCAATATATGCATGCCTGTTTGATTGGTTGGTTGAACAGATAAATAAATCACTTGCTGTTGGCAAAAGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - -gaatgta
- - - - - - - - - - -ccttgaa
- - - - - - - - - - - - - - tgatttg