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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgatttaaataccttgatttagttaatcataatttcttttttaccatttcatgttggactctttatttgttgcttctcacataaaattttgtgttacagTGGTGAACCCTTAACTGTCCAAGTTCCAGGAACTCAAACTCGCAGTTTTTGCTATGTCTCTGACATG

Basic information

species Glycine max
transcript GLYMA12G06980.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G06980.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv06s0004g04390.t01 (Vitis vinifera), 3'ss of exon 9
ttgatttaaataccttgatttagttaatcataatt--tcttttttaccatttcatgttggactctttatttgttgcttctcacataaaattttg--tgttacagTGGTGAACCCTTAACTGTCCAAGTTCCAGGAACTCAAACTCGCAGTTTTTGCTATGTCTCTGACATG
      ||  |||  ||| ||  | | | |       ||||  || |  | | |  ||| |  ||| | || |    | |    |     |||   ||||  ||||||||||| || || || || | ||| ||||| || ||||||||||| ||||||||||||||||||
--agcatacttac--tgaattgataatttaagccccatcttacttgctttataacattgtaaccttcaattctcatcttttgtttttttcttttgttgttgtagTGGTGAACCTTTGACAGTTCAGGCTCCTGGAACACAGACTCGCAGTTTCTGCTATGTCTCTGACATG

upper sequence: GLYMA12G06980.2 (Glycine max), 3'ss of exon 8
lower sequence: PP1S189_118V6.1 (Physcomitrella patens), 3'ss of exon 9
ttgatttaaataccttgatttagttaatcataatttcttttttaccatttcatgttggactctttatttgttgcttctcacataaaattttgtgttacagTGGTGAACCCTTAACTGTCCAAGTTCCAGGAACTCAAACTCGCAGTTTTTGCTATGTCTCTGACATG
          |||      | |     ||| ||||   | ||| || |  | |  || ||||           | | | |||| |  |   |   |  || || ||  |  | || || || | |||||| ||||||||||| ||||||||||| |||||||| |||
---------gtactggtcctcaaggtctcaaaattcaatattt-ccttaacttaatgaactc-------aacacatttgacatgatgtacgggtgtgtagAGGGGAGACGATGACGGTGCAGGCTCCAGGCACTCAAACTCGTAGTTTTTGCTACGTCTCTGATATG
















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|209703510|gb|BW656548.1|BW656548
EST:     AATATTGATGATGGGCGTGTTGTCAGTAACTTCATCGCTCAAGCAATTCG                         TGGTGAACCCTTAACTGTCCAAGTTCCAGGAACTCAAACTCGCAGTTTTTG
genomic: AATATTGATGATGGGCGTGTTGTCAGTAACTTCATCGCTCAAGCAATTCGgtaattcctt ... tgtgttacagTGGTGAACCCTTAACTGTCCAAGTTCCAGGAACTCAAACTCGCAGTTTTTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catttcatgttggactctttatttgttgcttctcacataaaattttgtgttacagTGGTGAACCCTTAACTGTCCAAGTTCCAGGAACTCAAACTCGCAGTTTTTGCTATGTCTCTGACATG
                             ttctcac  putative branch site (score: 2)
                                    ataaaattttgtgtta  TA-rich tract