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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgtacacacatatgcacacatacattgctacttatataatctttgttctcacgttagatactactatttttgcttcagGCTCTTCTTTCTGGATGCTCGGCTGGTGGTTTGGCTACTATTATACACTGTGATGAATTCAGAGGTTTTTTCCCACAGACTACGAAAGTGAAGTGTCTTA

Basic information

species Glycine max
transcript GLYMA10G28230.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G28230.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os07g44070.2 (Oryza sativa), 3'ss of exon 5
-----gttgtacacacatatgcacacatacattgctacttatataatctt-----tgttctcacgttagatactactattt--ttgcttcagGCTCTTCTTTCTGGATGCTCGGCTGGTGGTTTGGCTACTATTATACACTGTGATGAATTCAGAGGTTTTTTCCCACAGACTACGAAAGTGAAGTGTCTTA
     | |     ||||  |   ||  |    |    | | |   || ||     |  | |    ||   | | || | |   ||    ||||| ||||||||||||||||| ||||||||| |  | || ||  | |||||||| || ||| | || || ||       | ||| || |||||||| ||| 
gtactgatccttccacagctaatcatgttttctttagccttttggattttggaaataatttatgtttccttgccacaactcaattctaccagGCACTTCTTTCTGGATGCTCTGCTGGTGGTGTTTCAACCATACTTCACTGTGACGAGTTCCGTGGATTGTTTAGCGGCAGTACAAACGTGAAGTGCCTTG

upper sequence: GLYMA10G28230.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv14s0060g00230.t01 (Vitis vinifera), 3'ss of exon 5
--------gttgtacacacatatgcacacatacat-tgctacttata-taatctttgttctcacgttagatactactatttttgcttcagGCTCTTCTTTCTGGATGCTCGGCTGGTGGTTTGGCTACTATTATACACTGTGATGAATTCAGAGGTTTTTTCCCACAGACTACGAAAGTGAAGTGTCTTA
          ||||      | ||  |     | | |  | | | || ||||  || || | || | |  |   | | ||| || ||||||||||||||||||| ||||| ||||| ||| ||||  ||||| | ||||||||||| ||  |||| ||||| |||   | ||| ||||||||||| || |
gtttgatgtctgtaatgttttttgttctttctcttcttttccctgtagtaattcttcttattacatcatgtga-attttttgtgtttcagGCTCTTCTTTCTGGGTGCTCTGCTGGAGGTCTGGCAGCTATTTTGCACTGTGATGAGTTTCGAGGCTTTTTTCCAAGAAATACTAAAGTGAAGTGCCTGA
















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|15663644|gb|BI701015.1|BI701015
EST:     CGGCAGCAATCGAAGATTTGATGTCAAAGGGAATGCGATTTGCCAGGCAG                         GCTCTTCTTTCTGGATGCTCGGCTGGTGGTTTGGCTACTATTATACACTGT
genomic: CGGCAGCAATCGAAGATTTGATGTCAAAGGGAATGCGATTTGCCAGGCAGgttgtacaca ... tttgcttcagGCTCTTCTTTCTGGATGCTCGGCTGGTGGTTTGGCTACTATTATACACTGT
EST: gi|209706963|gb|BW661522.1|BW661522
EST:     CGGCAGCAATCGAAGATTTGATGTCAAAGGGAATGCGATTTGCCAGGCAG                         GCTCTTCTTTCTGGATGCTCGGCTGGTGGTTTGGCTACTATTATACACTGT
genomic: CGGCAGCAATCGAAGATTTGATGTCAAAGGGAATGCGATTTGCCAGGCAGgttgtacaca ... tttgcttcagGCTCTTCTTTCTGGATGCTCGGCTGGTGGTTTGGCTACTATTATACACTGT
EST: gi|8284433|gb|BE021992.1|BE021992
EST:     CGGCAGCAATCGAAGATTTGATGTCAAAGGGAATGCGATTTG-C---CAG                         GCTCTTCTTTCTGGATGCTCGGCTGGTGGTTTGGCTACTATTATACACTGT
genomic: CGGCAGCAATCGAAGATTTGATGTCAAAGGGAATGCGATTTGCCAGGCAGgttgtacaca ... tttgcttcagGCTCTTCTTTCTGGATGCTCGGCTGGTGGTTTGGCTACTATTATACACTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgctacttatataatctttgttctcacgttagatactactatttttgcttcagGCTCTTCTTTCTGGATGCTCGGCTGGTGGTTTGGCTACTATTATACACTGTGATGAATTCAGAGGTTTTTTCCCACAGACTACGAAAGTGAAGTGTCTTA
                      ttctcac  putative branch site (score: 2)
                                           tttttgcttc  putative PPT
     tacttatataatcttt  TA-rich tract