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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcccatgaaattggatggtactcatcgtagcttatactctgctgtgttttagtaattcatagcctcccaactgattctgttatattcctcattatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCTTACTGAGGAACAG

Basic information

species Glycine max
transcript GLYMA10G03740.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G03740.2 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os03g06740.1 (Oryza sativa), 3'ss of exon 6
tgcccatgaaattggatggtactca-tcgtagcttatactctgctgtgttttagtaattcatagcctcccaactgattctgttatattcctcattatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCTTACTGAGGAACAG
       | | ||   || |  ||| |   |  ||||    |  ||  | ||  |  | ||| |  | |    ||||| ||  ||    |  |||    |||||||| || ||||| || || || |||||||| || |||||||||||||||||||| || |||
catttcagtatttcactgtttatcagttaaattttatttggttttggttattgttgttccattggatgctccttgattgtga-attgcacaaatttgacagAGCTGTACCATCTGCCGTTTTCTCCCAACCACCCATCGGACAAGTTGGTCTTACTGAAGAGCAG

upper sequence: GLYMA10G03740.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G172322_T02 (Zea mays), 3'ss of exon 6
-----tgcccatgaaattggatggtactcatcgtagcttatactctgctg-tgttttagtaattcatagcctcccaactgattctgttatattcctcattatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCTTACTGAGGAACAG
     || | ||    |  ||   |   ||| |   | |    | |   | | |      || | |   |    | | ||  |   ||| | |  |    |    ||||| | ||||||||||| || || ||||||||||| ||||||||||||||||||||||| |||
gattgtgtctatcccgtccgacactggccatggggccatgctatttatggatatcaactcaactgaccactcttccattg--tgaattacaatttttggca----gAGCTATACCTTCTGCTGTGTTCTCCCAACCACCAATAGGACAAGTTGGTCTTACTGAGGAGCAG

upper sequence: GLYMA10G03740.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv07s0141g00390.t01 (Vitis vinifera), 3'ss of exon 6
tgcccatgaaattggatggtactcatcgtagcttatactctgctgtgttttagtaattcatagcctcccaactgattctgttatattcctcattatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCTTACTGAGGAACAG
  |  |  |    |  |  |||   |   || ||| |   |     | |    |   ||        | | |||| |   || | |       |    |||||||| || |||||||| ||||| || ||||| ||||||||||||||||||||||| ||||||
ccctgagaaggaagtctaatacaagtttgagtttaaatggtaaaaggctaagtttgatctgtattagctacctgactagattgtttcttcttatgagcagAGCTGTACCATCTGCTGTGTTTTCCCAGCCACCTATTGGACAAGTTGGTCTTACTGAAGAACAG

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|19347352|gb|BM892232.1|BM892232
EST:     GCATTAGTAAAAACACTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACACTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... cattatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|16347393|gb|BI972988.1|BI972988
EST:     GTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... cattatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|192299302|gb|FG988702.1|FG988702
EST:     GCATTAGTAAAAACACTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACACTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... cattatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|11273725|gb|BF324101.1|BF324101
EST:     GCATTAGTAAAAACACTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACACTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... cattatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|15286301|gb|BI470192.1|BI470192
EST:     GTAAAAACACTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GTAAAAACACTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... cattatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttttagtaattcatagcctcccaactgattctgttatattcctcattatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCTTACTGAGGAACAG
                        aactgat  putative branch site (score: 3)
                                        ttcctcatt  putative PPT
        taattcata  TA-rich tract