Sequence
atgc intronic sequence ATGC exonic sequenceTTGTTTATCTCTCCAGATCATCAAAGTATACCGGCAACTATGTGATGCATCAAACACTTTCCACTTACTATTACCTTATGAAGCCTTCTTTGGCCCCCAGgtatatatactttgtttatctagttatgctctgtcagtctttattcttgccattattctttgagtatatagagatctgaattttatgcagtcagcgattg...
Basic information
species | Glycine max |
transcript | GLYMA09G08830.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G08830.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os04g24180.1 (Oryza sativa), 5'ss of exon 6
TTGTTTATCTCTCCAGATCATCAAAGTATACCGGCAACTATGTGATGCATCAAACACTTTCCACTTACTATTACCTTATGAAGCCTTCTTTGGCCCCCAGgtatatatactttgtttatctagttatgctctgtcagtctttattcttgccattattctttgagtatatagagatctga-attttatgcag--tcagcgattg
|| ||||| | || || ||||||||||| ||||| || ||||| ||||||||||| || |||||||| || ||| | ||||||||||| |||| || |||||| || | || || | | | ||| || | || ||| | | || || | | | | | ||| || | | ||
TTATTTATTTGTCAAGGTCATCAAAGTACACCGGAAATTATGTCATGCATCAAACTCTGTCCACTTATTACTACTTCATGAAGCCTTCACTGGCTCCAAGgtatcagcgctaataagacctcattctaacatat-ggtcatttcttgtgaggttaacatgttagcatgctggaacatcatgtaggatgtagcattactgag--
upper sequence: GLYMA09G08830.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G007871_T02 (Zea mays), 5'ss of exon 5
TTGTTTATCTCTCCAGATCATCAAAGTATACCGGCAACTATGTGATGCATCAAACACTTTCCACTTACTATTACCTTATGAAGCCTTCTTTGGCCCCCAGgtatatatactttgtttatctagttatgctctgtcagtctttattcttgccatt---attctttgagtatatagagatctgaattttatgcagtcagcgattg
|| ||||| | || ||||||||||| ||||| || |||||||| ||||||||||| | ||||||||||| ||| |||||||||| ||| | || || |||||| | | | || | || | |||| | | || || ||| || || | ||| | | | || | | | || | |
TTATTTATTTGTCAAGATCATCAAAATATACTGGAAACTATGTCATGCATCAAACTTTGTCCACTTACTACTACTTTATGAAGCCATCTCTTGCTCCAAGgtatgaac-ttgcgaacatgtcatttaacactgttacttttggaatttaatatttgtgtttccctagcacatattg-tttaaagtgcaagtgctctgtatct-
upper sequence: GLYMA09G08830.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G167868_T01 (Zea mays), 5'ss of exon 5
TTGTTTATCTCTCCAGATCATCAAAGTATACCGGCAACTATGTGATGCATCAAACACTTTCCACTTACTATTACCTTATGAAGCCTTCTTTGGCCCCCAGgtatatatactttgtttatctagttatgctctgtca--gtctttattcttgcc-attattctttgagtatatagagatctgaattttatgcagtcagcgattg
|| ||||| | || ||||| ||||| ||||| || |||||||| ||||||||||| || ||||||||||| ||| |||||||||| ||| | || || |||||| || | | | | || | ||||| | ||| | ||| || | || ||| || | || | || ||| | || |
TTATTTATTTGTCAAGATCGTCAAAATATACTGGAAACTATGTCATGCATCAAACTCTGTCCACTTACTACTACTTTATGAAGCCATCTCTTGCTCCAAGgtatg-atcatacgaacacatcatttaacattgtcataatatttgtgcttccctagcatgtcttgtttaagtggaagttct--ttgtatctgttttttgaatt
upper sequence: GLYMA09G08830.1 (Glycine max), 5'ss of exon 6
lower sequence: AT1G79940.3 (Arabidopsis thaliana), 5'ss of exon 6
TTGTTTATCTCTCCAGATCATCAAAGTATACCGGCAACTATGTGATGCATCAAACACTTTCCACTTACTATTACCTTATGAAGCCTTCTTTGGCCCCCAGgtatatatactttgtttatctagttatgctc---tgtcagtctttattcttgccattattctttgagtatatagagatctgaattttatgcagtcagcgattg---------
|| | |||||||| || |||||||||||||| || ||||| || |||||||||||||| ||| | || ||||| || ||||| || ||| ||||||| |||||||| ||| || | | || || || | || | | || || || || || | | || || ||| | | ||
TTATATATCTCTCGAGGTCATCAAAGTATACTGGGAACTACGTTATGCATCAAACACTCTCCGCATATTATTATCTAATGAAACCCTCTCTGGCCCCAAGgtatattcactc---atacccatatacattcaagtgatgctattggtgcatgacaa-atgggctgtgttttcgtttgtttgtatgacatgttttaaaatttttattgtccag
upper sequence: GLYMA09G08830.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv16s0050g01460.t01 (Vitis vinifera), 5'ss of exon 5
TTGTTTATCTCTCCAGATCATCAAAGTATACCGGCAACTATGTGATGCATCAAACACTTTCCACTTACTATTACCTTATGAAGCCTTCTTTGGCCCCCAGgtatatatactttgtttatctagttatgctctgtcagtctttattcttgccattattctttgagtatatagagatctgaa---ttttatgcagtcagcgattg
|||||||||| || |||||| |||| ||||| || |||||||| ||||||||||| || || |||||||||||| | ||||| |||||||||||||| |||||| ||| || || || | || | || ||| ||||||||| | | | ||||| || | | |||| | | | |
TTGTTTATCTATCAAGATCAGCAAAATATACTGGGAACTATGTCATGCATCAAACTCTGTCTACTTACTATTACTTCATGAAACCTTCTTTGGCCCCAAGgtat-tatgtttatttaattt--ttttcctaattcataatttattcttaaagaatatttccactcaagtagagtcttggaaggtgttatttggatacagccttMapped 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|254336435|gb|GR842614.1|GR842614EST: CAAACACTTTCCACTTACTATTACCTTATGAAGCCTTCTTTGGCCCCCAG CAAAGTAATGGATGTCTTCATCAAGGCTGCTGAATATATGGAAATTCCAGT
genomic: CAAACACTTTCCACTTACTATTACCTTATGAAGCCTTCTTTGGCCCCCAGgtatatatac ... tgttgtacagCAAAGTAATGGATGTCTTCATCAAGGCTGCTGAATATATGGAAATTCCAGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTGTTTATCTCTCCAGATCATCAAAGTATACCGGCAACTATGTGATGCATCAAACACTTTCCACTTACTATTACCTTATGAAGCCTTCTTTGGCCCCCAGgtatatatactttgtttatctagttatgctctgtcagtctttattcttgccattattctttgagtatatagagatctgaattttatgcagtcagcgattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC