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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagagtcattcattgttgacattgtctttaactttaaaagcaagctgttctggattcatgaatacaaccttttatttgcagTTTCATTGGAAACCCTGGTCTTTGTGGTAATTGGCTGAATTTGCCGTGTCATGGTGCTCGCCCTTCAGAGCGAG

Basic information

species Glycine max
transcript GLYMA17G34380.1
intron # 23
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G34380.2 (Glycine max), 3'ss of exon 21
lower sequence: Vv04s0008g01970.t01 (Vitis vinifera), 3'ss of exon 22
-------------------------------------------------------------------------gtgagagtcattcattgttgacattgtctttaactttaaaagcaagctgttctggattc--atgaatacaaccttttatttgcagTTTCATTGGAAACCCTGGTCTTTGTGGTAATTGGCTGAATTTGCCGTGTCATGGTGCTCGCCCTTCAGAGCGAG
                                                                         |||  | |     | || |    ||| | ||   |||     |    | |||    ||   |   ||  ||||||||   ||||||||||||||||| ||||||||||||||| ||||||| | ||  || ||||||   ||||  ||  |||||||||
gttaaaagatttttgctgtatttttttaatccctttgttttactaggccagaaactcaaagttgtgctttgctgtgtcaatataaaactggttgttttgaccttgtttttttttcc---tttttcaaactttcaactgatgtaacctttttcatgcagTTTCATTGGAAATCCTGGTCTTTGTGGTTATTGGCTTAGTTCTCCATGTCATCAGGCTCATCCAACAGAGCGAG
















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|208147137|gb|GD950124.1|GD950124
EST:     TTTGGTGTCATCCCAACGAGTAACAACTTTACCAGGTTTCCCCCTGACAG                         TTTCATTGGAAACCCTGGTCTTTGTGGTAATTGGCTGAATTTGCCGTGTCA
genomic: TTTGGTGTTATCCCAACGAGTAACAACTTTACCAGGTTTCCCCCTGACAGgtgagagtca ... ttatttgcagTTTCATTGGAAACCCTGGTCTTTGTGGTAATTGGCTGAATTTGCCGTGTCA
EST: gi|193538892|gb|FK496378.1|FK496378
EST:     TTTGGTGTTATCCCAACGAGTAACAACTTTACCAGGTTT-CCCCTGACAG                         TTTCATTGGAAACCCTGGTCTTTGTGGTAATTGGCTGAATTTGCCGTGTCA
genomic: TTTGGTGTTATCCCAACGAGTAACAACTTTACCAGGTTTCCCCCTGACAGgtgagagtca ... ttatttgcagTTTCATTGGAAACCCTGGTCTTTGTGGTAATTGGCTGAATTTGCCGTGTCA
EST: gi|193509024|gb|FK466068.1|FK466068
EST:     GGTGTTATCCCAACGTAGTTAACTAACTTTACCAGGTTTCCCCCTGACAG                         TTTCATTGGAAACC
genomic: GGTGTTATCCCAACG-AGT-AAC-AACTTTACCAGGTTTCCCCCTGACAGgtgagagtca ... ttatttgcagTTTCATTGGAAACC
EST: gi|193372976|gb|FK336066.1|FK336066
EST:     TTTGGTGTTATCCCAACGAGTAACAACTTTACCAGGTTTCCCCCTGACAG                         TTTCATTGGAAACCCTGGTCTTTGTGGTAATTGGCTGAATTTGCCGTGTCA
genomic: TTTGGTGTTATCCCAACGAGTAACAACTTTACCAGGTTTCCCCCTGACAGgtgagagtca ... ttatttgcagTTTCATTGGAAACCCTGGTCTTTGTGGTAATTGGCTGAATTTGCCGTGTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttaactttaaaagcaagctgttctggattcatgaatacaaccttttatttgcagTTTCATTGGAAACCCTGGTCTTTGTGGTAATTGGCTGAATTTGCCGTGTCATGGTGCTCGCCCTTCAGAGCGAG
 ctttaac  putative branch site (score: 3)
                                         ccttttattt  putative PPT
                                           ttttattt  TA-rich tract