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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttctgtagctttttaggttatcttgtaagctgttccttttttgtttatcggttcttttctaaatctttgtgtgaattatttactattgcagACTGTTTTTGAGAACAGTCTAATGCAACACCATATTGCACTTCCTCCTGATAACATGGGAAAGATTACCTACATTGCACCACCTGGCCAATATTCCATAA

Basic information

species Glycine max
transcript GLYMA08G23990.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G23990.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv04s0008g02580.t01 (Vitis vinifera), 3'ss of exon 6
----------------------gtatgttctg-tagctttttag-gttatcttg------taagctgttccttttttgtttatcggttcttttctaaatctttgtgtgaattatttactattgcagACTGTTTTTGAGAACAGTCTAATGCAACACCATATTGCACTTCCTCCTGATAACATGGGAAAGATTACCTACATTGCACCACCTGGCCAATATTCCATAA
                      || ||||    |||  ||  || |||  ||||      || | |||  ||||| | |  ||   ||||  | |  |    | | | |||  | |||   ||||| ||||||||||||| ||  |||||||||||||| |||||||||| ||||||   ||||||||||| || ||||| ||||||||||| ||||||||  |||
gtaagctgataacattattttagtttgttagaataggattgaagtgttgacttgggaaagtatggtgtcacttttctctcaattt-ttctgattttgactcatattttaatcctataca--tgcagTCTGTTTTTGAGAATAGCTTAATGCAACACCATGTTGCACTTCCCCCTGATGCTATGGGAAAGATCACTTACATAGCACCACCTGGTCAATATTCACTAA

upper sequence: GLYMA08G23990.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 6
------------------------------------------------------------------------gtatgttctgtagctttttaggttatcttgtaagctgttccttttttgtttatcggttcttttctaaatctttgtgtgaattatttactattgcagACTGTTTTTGAGAACAGTCTAATGCAACACCATATTGCACTTCCTCCTGATAACATGGGAAAGATTACCTACATTGCACCACCTGGCCAATATTCCATAA
                                                                         ||  |     |    | | |||     |  ||  || |  |||| | |  ||    | |  ||||| || |  | || | | |||     |||||||||| |||||||||||| ||||||| |||||| |||| ||||||||||||   ||||||||||| || ||  |||||||| |||| ||||| ||  | |
gtaagtttgttagcattgaacttggttattaaaaatttgaaggcctgtctattcaaaaacagaaaatttaaaataaataaatcaagaatattggtctcagttgaatatgatgattttct-tgcatttagtttcatctaagtcctgatatggaatttttttctatgcagACTGTCTTTGAGAACAGTTTAATGCAGCACCATGTTGCCCTTCCTCCTGATGCTATGGGAAAGATCACGTATGTTGCACCAGCTGGTCAATACTCGTTGA
















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|19935049|gb|BQ080079.1|BQ080079
EST:     GTGAAGGCGACCTTTTAACTGGTGGAGATTTATATGCT                         ACTGTTTTTGAGAACAGTCTAATGCAACACCATATTGCACTTCCTCCTGAT
genomic: GTGAAGGCGACCTTTTAACTGGTGGAGATTTATATGCTgtatgttctg ... actattgcagACTGTTTTTGAGAACAGTCTAATGCAACACCATATTGCACTTCCTCCTGAT
EST: gi|254333421|gb|GR841283.1|GR841283
EST:     GTGAAGGCGACCTTTTAACTGGTGGAGATTTATATGCT                         ACTGTTTTTGAGAACAGTCTAATGCAACACCATATTGCACTTCCTCCTGAT
genomic: GTGAAGGCGACCTTTTAACTGGTGGAGATTTATATGCTgtatgttctg ... actattgcagACTGTTTTTGAGAACAGTCTAATGCAACACCATATTGCACTTCCTCCTGAT
EST: gi|213588728|gb|DB957708.1|DB957708
EST:     GTGAAGGCGACCTTTTAACTGGTGGAGATTTATATGCT                         ACTGTTTTTGAGAGCAGTCTAATGCAACACCATATTGCACTTCCTCCTG
genomic: GTGAAGGCGACCTTTTAACTGGTGGAGATTTATATGCTgtatgttctg ... actattgcagACTGTTTTTGAGAACAGTCTAATGCAACACCATATTGCACTTCCTCCTG
EST: gi|14126347|gb|BG790785.1|BG790785
EST:     GTGAAGGCGACCTTTTAACTGGTGGAGATTTATATGCT                         ACTGTTTTTGAGAACAGTCTAATTCAAC
genomic: GTGAAGGCGACCTTTTAACTGGTGGAGATTTATATGCTgtatgttctg ... actattgcagACTGTTTTTGAGAACAGTCTAATGCAAC
EST: gi|209720598|gb|BW675045.1|BW675045
EST:     GTGAAGGCGACCTTTTAACTGGTGGAGATTTATATGCT                         ACTGTTTTTGAGA-CAGTCTAATGCA-CACCATATTGCACTTCCTCCTGAT
genomic: GTGAAGGCGACCTTTTAACTGGTGGAGATTTATATGCTgtatgttctg ... actattgcagACTGTTTTTGAGAACAGTCTAATGCAACACCATATTGCACTTCCTCCTGAT
EST: gi|11413112|gb|BF425123.1|BF425123
EST:     GTGAAGGCGACCTTTTAACTGGTGGAGATTTATATGCT                         ACTGTTTTTGAGAACAGTCTAATGCAACACCATATTGCACTTCCTCCTGAT
genomic: GTGAAGGCGACCTTTTAACTGGTGGAGATTTATATGCTgtatgttctg ... actattgcagACTGTTTTTGAGAACAGTCTAATGCAACACCATATTGCACTTCCTCCTGAT
EST: gi|19348868|gb|BM893400.1|BM893400
EST:     GCGAAGGCGACCTTTTAACTGGTGGAAGATT-ATATGCT                         AATGTTTTTGAGAACAG
genomic: GTGAAGGCGACCTTTTAACTGGTGGA-GATTTATATGCTgtatgttctg ... actattgcagACTGTTTTTGAGAACAG
EST: gi|209722703|gb|BW657957.1|BW657957
EST:     GTGAAGGCGACCTTTTAACTGGTGGAGATTTATATGCT                         ACTGTTTTTGAGAACAGTCTAATGCAACACCATATTGCACTTCCTCCTGAT
genomic: GTGAAGGCGACCTTTTAACTGGTGGAGATTTATATGCTgtatgttctg ... actattgcagACTGTTTTTGAGAACAGTCTAATGCAACACCATATTGCACTTCCTCCTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttttgtttatcggttcttttctaaatctttgtgtgaattatttactattgcagACTGTTTTTGAGAACAGTCTAATGCAACACCATATTGCACTTCCTCCTGATAACATGGGAAAGATTACCTACATTGCACCACCTGGCCAATATTCCATAA
                    ttctaaa  putative branch site (score: 2)
                                   tgaattatttactatt  TA-rich tract