Sequence
atgc intronic sequence ATGC exonic sequenceTGGAGCTGTTTATCATGGGAAATGGAAAGGTTCTGACGTTGCCATTAAGAGAATAAAAGCCAGTTGTTTTGCTGGAAGGCCATCTGAAAGAGCAAGATTGgtattatttgtgtctaattgttttccttttgtttaagtaactgtagatttataccttgtagaataagaattttctaatctcagtcacaaatctcttgctc...
Basic information
species | Glycine max |
transcript | GLYMA13G01190.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G01190.2 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os02g54510.3 (Oryza sativa), 5'ss of exon 4
TGGAGCTGTTTATCATGGGAAATGGAAAGGTTCTGACGTTGCCATTAAGAGAATAAAAGCCAGTTGTTTTGCTGGAAGGCCATCTGAAAGAGCAAGATTGgtattatttgt-gtctaattgttttcct----tttgtttaagtaact--gtagatttataccttgtagaataagaattttctaa------tctcagtcacaaatctcttgctc-----------------------------------------------------
||| || ||||| ||||| ||||||| ||| | ||| ||||| ||||| || ||||| || || ||||||||||| || |||||||| |||| | ||||||| || | | || || | | || | | | | | ||| ||| | | | | |||| || | | | ||| | | | |||||||
TGGTGCAGTTTACCATGGTAAATGGAGAGGATGTGATGTTGCTATTAAAAGGATAAAGGCTAGCTGTTTTGCTGGCAGACCATCTGAGAGAGAGCGTTTGgtatgcttgattgacttgttaacaccttagaacttttaggattgatttcatagctttttttttccttgttaaagatttctgttaaaaccctctggatagtgattttcttgcttttgtgtattctatggagaagatctctagttcagatatatatgtggttttgcag
upper sequence: GLYMA13G01190.2 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G039106_T02 (Zea mays), 5'ss of exon 2
TGGAGCTGTTTATCATGGGAAATGGAAAGGTTCTGACGTTGCCATTAAGAGAATAAAAGCCAGTTGTTTTGCTGGAAGGCCATCTGAAAGAGCAAGATTGgtattatt--tgtgtctaattgttt--tccttttgtttaagtaactgtagatttataccttgtagaataagaattttctaatctcagtcacaaatctcttgctc
||| || || |||||||| ||||||| || | || ||||| ||||| ||||||||||| ||||| ||||||||||| ||||||||||||| | ||||||| || | || | ||| | ||| | ||| || ||| || | | || | | | || | || |||| ||||
TGGGGCGGTCTATCATGGTAAATGGAGGGGATGCGATGTTGCTATTAAAAGAATAAAAGCAAGTTGCTTTGCTGGAAGACCATCTGAAAGAGAGCGTTTGgtatgtttaatttgctttgttgatagatccctcaattttagattttgtgctttcaaatgttt--gcactggccttacattattggttcgtcaaagtccttga--
upper sequence: GLYMA13G01190.2 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G052658_T01 (Zea mays), 5'ss of exon 3
TGGAGCTGTTTATCATGGGAAATGGAAAGGTTCTGACGTTGCCATTAAGAGAATAAAAGCCAGTTGTTTTGCTGGAAGGCCATCTGAAAGAGCAAGATTGgtattatttgtgtctaattgttttccttttgtttaagtaactgtagatttataccttgtagaataagaattttctaatctcagtcacaaatctcttgctc-
||| || ||||||||||| ||||||| ||| | ||| || || |||| ||||||||||| ||||| |||| ||||| |||||||| |||| | ||||||| | | | | |||| | | ||| || ||| | | | || | | | | | | || | || || | |
TGGGGCAGTTTATCATGGTAAATGGAGAGGATGTGATGTCGCTGTTAAAAGAATAAAAGCGAGTTGCTTTGTAGGAAGACCATCTGAGAGAGAGCGTTTGgtatgtctaattttcttgtcagttccatctattttaggttttgtgcttgcagatgtt-tgcactgacattacagtactggttcctcaaagtccttcacatt
upper sequence: GLYMA13G01190.2 (Glycine max), 5'ss of exon 6
lower sequence: AT5G57610.1 (Arabidopsis thaliana), 5'ss of exon 4
TGGAGCTGTTTATCATGGGAAATGGAAAGGTTCTGACGTTGCCATTAAGAGAATAAAAGCCAGTTGTTTTGCTGGAAGGCCATCTGAAAGAGCAAGATTGgtattatttgtgtctaattgttttccttttgtttaagtaactgtagatttataccttgtagaataagaattttctaatctcagtcacaaatctcttgctc
|||| ||||||| ||||| ||||||||||| || || ||||| || ||||||||||||||||| || ||||| || | || || ||||| | | | |||||| |||| | || || || || || | | | | ||| | | | | |||| | | | | | || ||||
TGGATCTGTTTACCATGGAAAATGGAAAGGCTCAGATGTTGCAATAAAGAGAATAAAAGCCAGCTGCTTTGCAGGCAAACCTTCGGAAAGGGAACGTTTGgtaaaattt-cattcctttattatcaattgaatttaaca--tattgatcaacgtttaagtctagtataattcttttactgcttttctg---ctgttgcag
upper sequence: GLYMA13G01190.2 (Glycine max), 5'ss of exon 6
lower sequence: Vv11s0052g01480.t01 (Vitis vinifera), 5'ss of exon 3
TGGAGCTGTTTATCATGGGAAATGGAAAGGTTCTGACGTTGCCATTAAGAGAATAAAAGCCAGTTGTTTTGCTGGAAGGCCATCTGAAAGAGCAAGATTGgtattatttgtgtctaattgttttccttttgtttaagtaactgtagatttataccttgtagaataagaattttctaatctcagtcacaaatctcttgctc
|||||||||||| ||||| |||||||| || ||||| || || || |||||||| |||||||| || |||||||| || ||||||||||||| | | |||||| || || || || || ||| || || | | ||| | || ||||| || | | | || | |
TGGAGCTGTTTACCATGGAAAATGGAAGGGGTCTGATGTAGCAATAAAGAGAATCAAAGCCAGCTGCTTTGCTGGGAGACCATCTGAAAGAGAACGTTTGgtagtaactgaatccttttaattataatttcttgttttatcagccacttttggtgtccaagtggtgcgatttttgcatatgattgcattatttttcatgt
upper sequence: GLYMA13G01190.2 (Glycine max), 5'ss of exon 6
lower sequence: PP1S66_220V6.1 (Physcomitrella patens), 5'ss of exon 4
TGGAGCTGTTTATCATGGGAAATGGAAAGGTTCTGACGTTGCCATTAAGAGAATAAAAGCCAGTTGTTTTGCTGGAAGGCCATCTGAAAGAGCAAGATTGgtattatt------tgtgtctaattgttttccttttgtttaagt-aactgtagatttataccttgtagaataagaattttctaat-ctcagt---cacaaatctcttgctc--------------------------------------------------
|||| |||| || ||||||||||||| ||| | |||||||| || ||| |||| |||||||| ||||||||||| |||| |||| |||| | |||||| || ||| | | || | || | | | | |||| | || || | | || | || | | | | | ||| ||||| | | | |
TGGAACTGTGTACCATGGGAAATGGAGAGGCACCGACGTTGCTATCAAGCGAATCAAAGCCAGCTGTTTTGCTGGTCGGCCTGCTGAGAGAGATCGCCTGgtatgatagtcgggtgtattctagtggatctctgatatatggcttaacttacaaattgaacgtctttgacttagggtctacctttacagagtgtattcaaatgtataggtatatcgtttgcatgtacttctgtcagtaatgtggagttgtgtttgttgcagMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|19269993|gb|BM886249.1|BM886249EST: GAATAAAAGCCAGTTGTTTTGCTGGAAGGCCATCTGAAAGAGCAAGATTG ATCACAGATTTCTGGAAGGAGGCGTTGATGTTGAGTTCATTGCATCATCCA
genomic: GAATAAAAGCCAGTTGTTTTGCTGGAAGGCCATCTGAAAGAGCAAGATTGgtattatttg ... gttgtcccagATCACAGATTTCTGGAAGGAGGCGTTGATGTTGAGTTCATTGCATCATCCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGAGCTGTTTATCATGGGAAATGGAAAGGTTCTGACGTTGCCATTAAGAGAATAAAAGCCAGTTGTTTTGCTGGAAGGCCATCTGAAAGAGCAAGATTGgtattatttgtgtctaattgttttccttttgtttaagtaactgtagatttataccttgtagaataagaattttctaatctcagtcacaaatctcttgctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA