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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttatgaaaaaaattgtcccataagatatagcaattgaatattcaaggattactattacgattcaaggaaaaagctgtgttttttaattggtgtctctttatatgccacagATTGTCATGGAGCTTCCCATCGAACACGGGTTACTTTTGGACAACCTTTTGGATCTTGCACATGCCCCTTTTACTCACACTTCAACTTTTGCTAAGGGAT

Basic information

species Glycine max
transcript GLYMA04G42840.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G42840.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G082527_T01 (Zea mays), 3'ss of exon 1
gtatgttatgaaaaaaattgtcccataagatatagcaattgaatattcaaggattactattacgattcaaggaaaaagc--tgtgttttttaat--tggtgtctctttat----atgccacagATTGTCATGGAGCTTCCCATCGAACACGGGTTACTTTTGGACAACCTTTTGGATCTTGCACATGCCCCTTTTACTCACACTTCAACTTTTGCTAAGGGAT
                                  | ||  | | || |    || | |     |   ||||   |  |   ||| ||||||  |   ||||| |  || |    || | |||||| || ||||| || ||  | ||||| ||  ||||  |||| ||||| ||||| ||||| ||||| |||||||| ||||| || || ||||||||||| |
----------------------------------gtaaaaggaaatcctgctatga-tgcagtggcacaagtgtattgtattgtatttttttgtaacggtgtgttcttctgatcatccaacagATAGTGATGGAACTGCCAGTTGAACATGGACTACTCCTGGATAACCTCTTGGACCTTGCTCATGCTCCTTTTACACACACATCCACCTTTGCTAAGGGCT

upper sequence: GLYMA04G42840.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv18s0001g02700.t01 (Vitis vinifera), 3'ss of exon 5
gtatgttatgaaaaaaattgtcccataagatatagcaattgaatattcaaggattactattacgattcaaggaaaaagctgtgttttttaattggtgtctctttatatgccacagATTGTCATGGAGCTTCCCATCGAACACGGGTTACTTTTGGACAACCTTTTGGATCTTGCACATGCCCCTTTTACTCACACTTCAACTTTTGCTAAGGGAT
||||||||| ||   | |     | |    | |     ||||||| | ||     | | ||                 ||     |||  ||   | | | ||   |     |||||||||||||| |||||  | ||||| ||| | ||| |||| ||||||||||||||||||||||||||||| ||||| || || || ||||| || ||||
gtatgttatcaatgcattcagatctt----tctgttgtttgaatacttaaaaggcatttttg--------------gtctcctcatttctatcattattttttggga-attgcagATTGTCATGGAACTTCCAGTGGAACATGGGCTTCTTCTGGATAACCTTTTGGATCTTGCACATGCCCCTTTCACTCATACATCCACCTTTGCCAAAGGAT
















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|9901694|gb|BE610662.1|BE610662
EST:     CTACCCTTCCATCTTTGCTACCTCCATCTGGGTTTGAAGTGCATGCTGAG                         ATTGTCATGGAGCTTCCCATCGAACACGGGTTACTTGTGGACAACCTTGTG
genomic: CTACCCTTCCATCTTTGCTACCTCCATCTGGGTTTGAAGTGCATGCTGAGgtatgttatg ... tatgccacagATTGTCATGGAGCTTCCCATCGAACACGGGTTACTTTTGGACAACCTTTTG
EST: gi|23728713|gb|BU762418.1|BU762418
EST:     CTACCCTTCCATCTTTGCTACCTCCATCTGGGTTTGAAGTGCATGCTGAG                         ATTGTCATGGAGCTTCCCATCGAACACGGGTTACTTTTGTACAACCTTTTG
genomic: CTACCCTTCCATCTTTGCTACCTCCATCTGGGTTTGAAGTGCATGCTGAGgtatgttatg ... tatgccacagATTGTCATGGAGCTTCCCATCGAACACGGGTTACTTTTGGACAACCTTTTG
EST: gi|15199646|gb|BI423937.1|BI423937
EST:     CTACCCTTCCATCTTTGCTACCTCCATCTGGGTTTGAAGTGCATGCTGAG                         ATTGTCATGGAGCTTCCCATCGAACACGGGTTACTTTTGGACAACCTTTTG
genomic: CTACCCTTCCATCTTTGCTACCTCCATCTGGGTTTGAAGTGCATGCTGAGgtatgttatg ... tatgccacagATTGTCATGGAGCTTCCCATCGAACACGGGTTACTTTTGGACAACCTTTTG
EST: gi|17022892|gb|BM093926.1|BM093926
EST:     CTACCCTTCCATCTTTGCTACCTCCATCTGGGTTTGAAGTGCATGCTGAG                         ATTGTCATGGAGCTTCCCATCGAACACGGGTTACTTTTGGACAACCTTTTG
genomic: CTACCCTTCCATCTTTGCTACCTCCATCTGGGTTTGAAGTGCATGCTGAGgtatgttatg ... tatgccacagATTGTCATGGAGCTTCCCATCGAACACGGGTTACTTTTGGACAACCTTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacgattcaaggaaaaagctgtgttttttaattggtgtctctttatatgccacagATTGTCATGGAGCTTCCCATCGAACACGGGTTACTTTTGGACAACCTTTTGGATCTTGCACATGCCCCTTTTACTCACACTTCAACTTTTGCTAAGGGAT
                         ttttaat  putative branch site (score: 3)
                                     tctctttat  putative PPT
                   tgtgttttttaatt  TA-rich tract