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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACTGCCAGTCCTTCATCAGAAAAAACATGGACCATGCGTACTACCTTTCCTGAATATGTCGTTGCTCTTGCCACTATTGTTGGATCTGTGCTTTTTGCTgtaagttaatcctatatcgtatgctgcctagggtagtttatggatttatctctactactttctttcaattatcattttttttcttgtgaaagtgtgtgtg...

Basic information

species Glycine max
transcript GLYMA01G30400.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G30400.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os06g03760.2 (Oryza sativa), 5'ss of exon 4
CACTGCCAGTCCTTCATCAGAAAAAACATGGACCATGCGTACTACCTTTCCTGAATATGTCGTTGCTCTTGCCACTATTGTTGGATCTGTGCTTTTTGCTgtaagtt--aatcctatat-cgtatgctgcct-agggtagtttatggatttatctctactactttctttcaattatcattttttttcttgtgaaagtgtgtgtg
||||||   | ||   ||  ||| ||| ||||| |||||  ||||||| ||||||||||| ||||||||||| || || ||||||||||| || ||  | || ||||  | | | || | | | |  ||| | |     |||| || ||  | ||  |    ||   |  | |  ||    | |  |   |     | |||   
CACTGCACCTGCTAACTCTCAAACAACTTGGACAATGCGCGCTACCTTCCCTGAATATGTGGTTGCTCTTGCTACCATCGTTGGATCTGTTCTCTTCACAgtgagttttacttcaatcttcatgttttgctttatcaccgtttctgtat--agctacatctattcactctactggtctgcatgtgaccgatagctttatgtc--

upper sequence: GLYMA01G30400.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G012284_T01 (Zea mays), 5'ss of exon 2
CACTGCCAGTCCTTCATCAGAAAAAACATGGACCATGCGTACTACCTTTCCTGAATATGTCGTTGCTCTTGCCACTATTGTTGGATCTGTGCTTTTTGCTgtaagttaatcctatatcgtatg--ctgcctagggtagtttatggatttatctctactactttctttcaatt-atcattttttttcttgtgaaagtgtgtgtg
 |||||     ||   ||  ||| ||| ||||| |||||| ||||||| ||||||||||| ||||||||| | || ||||||||||||||||||||  | || |||| ||  |  |    |||   ||  |   |||  || ||  | |||   || | || | ||  ||||   ||  |||||| | |  |  |   || ||
TACTGCACCGGCTAACTCGCAAACAACTTGGACAATGCGTGCTACCTTCCCTGAATATGTGGTTGCTCTTACTACAATTGTTGGATCTGTGCTTTTCACGgtgagttcattttcaactcaatggtttgttttatgtacattttg--tgtataggtattgctctgttcaaattcgccaaattttttttagatatggaaagt-tg

upper sequence: GLYMA01G30400.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM5G871262_T02 (Zea mays), 5'ss of exon 4
CACTGCCAGTCCTTCATCAGAAAAAACATGGACCATGCGTACTACCTTTCCTGAATATGTCGTTGCTCTTGCCACTATTGTTGGATCTGTGCTTTTTGCTgtaagttaatcctatatcgtatgctgc---ctagggtagtttatggatttatctctactactttctttcaattatcattttttttcttgtgaaagtgtgtgtg
 |||||     ||   ||  ||| ||| ||||| |||||| ||||||| ||||||||||| ||||||||| | || ||||||||||||||||||||  | || |||| ||  || |    ||| |      || ||   ||| |||   |||   || | |  | ||  |||| || |   |||| | |  |  ||  ||   
TACTGCACCGGCTAACTCGCAAACAACTTGGACAATGCGTGCTACCTTCCCTGAATATGTGGTTGCTCTTACTACAATTGTTGGATCTGTGCTTTTCACGgtgagtttattttaaacttaatggtttacgttatgggcatttttgg---tataggtattgccctgttcaaattttcctaggttttttagacatggtaagttga

upper sequence: GLYMA01G30400.1 (Glycine max), 5'ss of exon 4
lower sequence: AT5G01460.1 (Arabidopsis thaliana), 5'ss of exon 4
CACTGCCAGTCCTTCATCAGAAAAAACATGGACCATGCGTACTACCTTTCCTGAATATGTCGTTGCTCTTGCCACTATTGTTGGATCTGTGCTTTTTGCTgtaagttaatc-ctatatcgtatgctgcctagggtagtttatggatttatctctactactttctttcaattatcattttttttcttgtgaaagtgtgtgtg-------------------------------------------------------------------------------------------
 || || | | || | || ||||| |||||| ||||||||||||| ||||| |||||||| ||||||||||| || || ||||| || ||||| ||  | ||| ||  ||| || |||    || |   |      ||| |  | || | ||| | |   ||        ||| || ||| | | | | || |  ||  ||                                                                                           
TACAGCTAATGCTGCGTCTGAAAAGACATGGTCCATGCGTACTACGTTTCCAGAATATGTTGTTGCTCTTGCTACAATCGTTGGGTCAGTGCTCTTCACGgtatgtacatctctctattaggtgttttgt------gttaaaagtttcacctc-attgtcttggaaggcatataatctttct-catattaaggcttggttgtgttctcttgcagttaaaagacttttggtagctgtgattttttgctttcctctaaagattctgagaaactcttttatctcaaatgttgtag

upper sequence: GLYMA01G30400.1 (Glycine max), 5'ss of exon 4
lower sequence: AT3G08930.1 (Arabidopsis thaliana), 5'ss of exon 4
CACTGCCAGTCCTTCATCAGAAAAAACATGGACCATGCGTACTACCTTTCCTGAATATGTCGTTGCTCTTGCCACTATTGTTGGATCTGTGCTTTTTGCTgtaagttaatcctatatcgtatgctgcctagggtagtttatggatttatctctactactttctttca-attatcattttttttcttgtgaaagtgtgtgtg
 || || | |||  |||| || ||||||||||| ||||||||||| ||||| |||||||| ||||||||||| || |||||||| || || |||||  | ||| |   ||  | | |   ||| ||   || | | | | ||  || |       || | | | | | ||| |   || ||   |    ||          
TACAGCTAATCCCACATCTGAGAAAACATGGACTATGCGTACTACTTTTCCAGAATATGTTGTTGCTCTTGCGACAATTGTTGGGTCAGTTCTTTTCACGgtatgaccattgt-tctttcatgttgagaagtgcattgtttgctttgaaaggatttaatctgtcttatattgttgattcttcattgactaacacaaactct

upper sequence: GLYMA01G30400.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv08s0007g02270.t01 (Vitis vinifera), 5'ss of exon 4
CACTGCCAGTCCTTCATCAGAAAAAACATGGACCATGCGTACTACCTTTCCTGAATATGTCGTTGCTCTTGCCACTATTGTTGGATCTGTGCTTTTTGCTgtaagttaat-cctatat-cgtatgctgcctagggtagtttatggatttatctctactac-tttctttcaattatcattttttttcttgtgaaagtgtgtgtg
  |||| ||| ||||||| || ||||||||||| ||||| ||||| ||||| |||||||| ||||||||||| || ||||| |||||||| |||||  ||||| ||| || |||  |  | | |  | | |    || | |   || |||    |  |||  ||   | || | |   |    || |       || |     
TTCTGCAAGTGCTTCATCTGAGAAAACATGGACTATGCGCACTACTTTTCCAGAATATGTTGTTGCTCTTGCTACCATTGTCGGATCTGTACTTTTCTCTgtatgttcattcctgcaaacctttaatcctttatttaatgttctgagttactcttgttacacttaccttaaatgtagatacaattttaaatgtggtattc---

Mapped 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|23057508|gb|BU578182.1|BU578182
EST:     CTGAATATGTCGTTGCTCTTGCCACTATTGTTGGATCTGTGCTTTTTGCT                         ATATTTGGTGGTGTTGGTATTGCTTGTCTTCCATTGGGACTTATATTTTCA
genomic: CTGAATATGTCGTTGCTCTTGCCACTATTGTTGGATCTGTGCTTTTTGCTgtaagttaat ... ttcaatccagATATTTGGTGGTGTTGGTATTGCTTGTCTTCCATTGGGACTTATATTTTCA