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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtctgtccaatgaagttctattcctttcctttcaccatttatgtgcaaaacctcattcctaaacctttttgtgtccagctttcaaacttgacaatacttagtgtttgctttgcattttcatggaacttaacattgccctctttcctgtagTTGTATCAAAACAAGTTGTCTACTATAAGGGTCATCAAGTACACAATCTCAATGAATTGGAATACATAAATGGTGAAGTCTGGGCAAATGTTTTTATG

Basic information

species Glycine max
transcript GLYMA16G29760.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G29760.2 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os06g01410.1 (Oryza sativa), 3'ss of exon 6
gtttgtctgtccaatgaagttct-attcctttcctttcaccatttatgtgcaaaacctcattcctaaacctttttgtgtccagctttcaaacttgacaatacttagtgtttgctttgcattttcatggaacttaacattgccctctttcctgtagTTGTATCAAAACAAGTTGTCTACTATAAGGGTCATCAAGTACACAATCTCAATGAATTGGAATACATAAATGGTGAAGTCTGGGCAAATGTTTTTATG
  |  |   |||| |||  || | |||||  |    |||   | |  |  |   |  ||| | ||| ||  |   |   |  || |    |||  | | |  |  || |     || |||||| ||   | || |||||      |||  || |||  |    | |     |||  | ||| | | | || |||| | | |||| |||||| ||||||| ||||| |||||||| ||||||||||| |    |
-gtaattattccagtgattttgtgattcccattggctcatgttgttcg-acttgatttcacttctagac--tcaggcaacttgcctg-ggactaaaaactgtt--gtttgaaacttccattttgatt--atttgacatt----cttttggtgcagTCATGAAGACAGTGACTGTGAAATATCAAGATAATGAAGTCCCCTATCTTAATGAACTGGAATATATAAACGGTGAAGTATGGGCAAATGTCTGGCAG

upper sequence: GLYMA16G29760.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G011893_T01 (Zea mays), 3'ss of exon 6
gtttgtctgtccaatgaagttctattcctttcctttcaccatttatgtgcaaaacctcattcctaaacctttttgtgtccagctttcaaacttgacaatac-ttagtgtttgctttgcattttcatggaacttaacattgccctctttcctgtagTTGTATCAAAACAAGTTGTCTACTATAAGGGTCATCAAGTACACAATCTCAATGAATTGGAATACATAAATGGTGAAGTCTGGGCAAATGTTTTTATG
                                                                          ||  | |   ||    ||||| | |   |||| ||||   || | ||||| |  |   | ||       | |||| || |||  |   |        |||| | ||| | ||| ||||||| | | |||| |||||  ||||||| ||| |||||||||||||||||||||| |    |
--------------------------------------------------------------------------gttactattctttctgcttgatattctattagggtttaaatttctttttcttttatgctgac--caatttttttcatgcagTCATGAAAGTGGTGACTGTCAAGTATCACGGTAATCAAGTCCCCTATCTTAATGAGCTGGAATATATAGATGGTGAAGTCTGGGCAAATGTCTGGCAG
















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|5606901|gb|AI900999.1|AI900999
EST:     AAGTGATGGCAGTTCAACATTGTATCAAATTGATCCTCAAACGTTTAAAG                         TTGTATCAAAACAAGTTGTCTACTATAAGGGTCATCAAGTACACAATCTCA
genomic: AAGTGATGGCAGTTCAACATTGTATCAAATTGATCCTCAAACGTTTAAAGgtttgtctgt ... tttcctgtagTTGTATCAAAACAAGTTGTCTACTATAAGGGTCATCAAGTACACAATCTCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttagtgtttgctttgcattttcatggaacttaacattgccctctttcctgtagTTGTATCAAAACAAGTTGTCTACTATAAGGGTCATCAAGTACACAATCTCAATGAATTGGAATACATAAATGGTGAAGTCTGGGCAAATGTTTTTATG
                             acttaac  putative branch site (score: 3)
                                   cattgccctctttcct  CT-rich tract
                  attttcat  TA-rich tract