Sequence
atgc intronic sequence ATGC exonic sequence...ttattgttttgtgtgatgatctgacaaacttcatgaattattatagttcttattaacatcacagcttctgacaactatgtctcaaattgttgtgaatcagGACATTGAATTATCAAAAGAAATAAATGAGTCATTCAAACAGTCATCACAGGCGAGGTCAAAACTTGCATCAGGGATTGAAATGAGTGTTCATGTTTTAA
Basic information
species | Glycine max |
transcript | GLYMA08G10180.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G10180.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os03g57290.1 (Oryza sativa), 3'ss of exon 9
-ttattgttttgtg---tgatgatctgacaaacttcatgaattattatagttcttattaacatcacagcttctgacaactatgtctcaaattgttgtgaatcagGACATTGAATTATCAAAAGAAATAAATGAGTCATTCAAACAGTCATCACAGGCGAGGTCAAAACTTGCATCAGGGATTGAAATGAGTGTTCATGTTTTAA
||| | | | || || | | |||| |||| | | || ||| | || | | | ||| || | | ||| |||||||||||||||||| ||||||||||||||||| ||||| || ||||| || || ||| |||| ||| |||| || ||||||||||||||||| || | |
tctatgcctctatccattggtggcgtacacgatatcatcaatttcttttatttggatt--taatactcttgtaaaataaaatgactttggt-gctgttc-tcagGACATTGAATTATCCAAAGAAATAAATGAGTCTTTCAAGCAATCATCTCAAGCAAGGACAAAGCTTCCATCTGGCATTGAAATGAGTGTTCACGTGCTTA
upper sequence: GLYMA08G10180.1 (Glycine max), 3'ss of exon 9
lower sequence: AC155496.2_FGT009 (Zea mays), 3'ss of exon 9
-------------------------------------------------ttattgttttgtgtgatgatctgacaaacttca--tgaattatta-tagttcttat-taacatcacagcttctgacaactatgtctcaaattgttgtgaatcagGACATTGAATTATCAAAAGAAATAAATGAGTCATTCAAACAGTCATCACAGGCGAGGTCAAAACTTGCATCAGGGATTGAAATGAGTGTTCATGTTTTAA
|| ||| | | | | | || |||| ||| | | ||||| | || ||| || || || | || || |||| |||||||||||||||| |||||||||||||| ||||||| ||| ||||| || || ||| |||| ||| | || || |||||||||||||| ||||| | |
gtagcgttagctgttattactatgaatacatttttagtcttatcttattttgcgaacctgtacagttgtatcgttaggtgcatctgaaatatcaacatttcttttgtatagattcagtatcctttaaacatctgtctggtt-ttgt-----agGACATTGAATTATCCAAAGAAATAAATGATTCATTCAGACAATCATCTCAAGCTAGGACAAAGCTTCCCTCTGGCATTGAAATGAGTGTCCATGTGCTTA
upper sequence: GLYMA08G10180.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G704093_T01 (Zea mays), 3'ss of exon 8
-------------------------------------------------ttattgttttgtgtgatgatctgacaaacttca--tgaattatta-tagttcttattaacatcacagcttctgacaactatgtctcaaattgttgtgaat-cagGACATTGAATTATCAAAAGAAATAAATGAGTCATTCAAACAGTCATCACAGGCGAGGTCAAAACTTGCATCAGGGATTGAAATGAGTGTTCATGTTTTAA
|| | | | | | | | | || |||| ||| | || ||||| || ||| | | || ||| | | || | |||||||||||||||| ||||||||||| || ||||||| || ||||| || || ||| |||| ||| | ||||| |||||||||||||||||||| | |
gtagtgttagctgtttctactatgatgatatttctagtcttattttattttgcacacctctatagttctatcgttagatgcatctgaaatatcaatatttctttatatagattcagtgcccttttaacatctcttattacctgctggttgtagGACATTGAATTATCCAAAGAAATAAACGATTCATTCAGGCAATCATCTCAAGCTAGGACAAAGCTTCCCTCAGGCATTGAAATGAGTGTTCATGTGCTTA
upper sequence: GLYMA08G10180.1 (Glycine max), 3'ss of exon 9
lower sequence: AT5G46210.1 (Arabidopsis thaliana), 3'ss of exon 9
ttattgttttgtgtgatgatctgacaaacttcatgaattattata-gttcttattaacatcacagcttctgacaactatgtctcaaattgttgtgaatcagGACATTGAATTATCAAAAGAAATAAATGAGTCATTCAAACAGTCATCACAGGCGAGGTCAAAACTTGCATCAGGGATTGAAATGAGTGTTCATGTTTTAA
| | | | | | || ||||| | | || || | ||| | | ||| || || | | | | ||||| |||||||| ||||| ||||| || |||||||||||||| || || ||||| || ||||||| |||| || ||||| |||||||| || |||||||
-tggcggatgatcctgctccatacttattttaatgaacttgtgtacatttacaataatcctaatgagcttgaactctccgttttattgaaattttctccagGATATTGAATTGTCAAAGGAAATCAACGAGTCATTCAAACAATCTTCCCAGGCCAGAACAAAACTGCCATCGGGAATTGAGATGAGTGTCCACGTTTTAA
upper sequence: GLYMA08G10180.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv10s0003g03710.t01 (Vitis vinifera), 3'ss of exon 9
------ttattgttttgtgtgatgatctgacaaacttcatgaattatt---atagttcttattaacatcacagcttctgacaactatgtctcaaattgttgtgaatcagGACATTGAATTATCAAAAGAAATAAATGAGTCATTCAAACAGTCATCACAGGCGAGGTCAAAACTTGCATCAGGGATTGAAATGAGTGTTCATGTTTTAA
||| | ||||| || | |||| ||| || | || || |||| | | |||| || | || || | | ||| | || | | ||||||||||||||||| ||||| ||||||||||| |||||||| ||||| || || ||| |||||||| || |||| ||||| |||||||||||||| ||||
aatgttatatgggtttgta-aatttccatacaagctt-ataatttgtttgcatagataatgttaa-attattttttatg----caacatcttgtaacattttta--cagGACATTGAATTATCTAAAGAGATAAATGAGTCCTTCAAACAATCATCGCAAGCCAGGACAAAACTTCCAACAGGAATTGAGATGAGTGTTCATGTCTTAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttcttattaacatcacagcttctgacaactatgtctcaaattgttgtgaatcagGACATTGAATTATCAAAAGAAATAAATGAGTCATTCAAACAGTCATCACAGGCGAGGTCAAAACTTGCATCAGGGATTGAAATGAGTGTTCATGTTTTAA
tattaacat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttattgttttgtgtgatgatctgacaaacttcatgaattattatagttcttattaacatcacagcttctgacaactatgtctcaaattgttgtgaatcagGACATTGAATTATCAAAAGAAATAAATGAGTCATTCAAACAGTCATCACAGGCGAGGTCAAAACTTGCATCAGGGATTGAAATGAGTGTTCATGTTTTAA
- - - - -tgtgtga
- - - - - - - - - -tctgaca
- - - - - - - - - - - - - - - -catgaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cagcttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctatgtc