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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgaaccatcacacttttctttgttacttttgttcttcctttgtgttttttttggcttctttaatatatgaagtggttctgagcagGCAATATATTGAATTTCAATGTTGGTGCTACGGTTGATTTGGATGTCCCACGTAGCTTTTGGAATCGCTTGGCTGGGAAGTATGGGAACATTTTCTATTG

Basic information

species Glycine max
transcript GLYMA10G06430.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G06430.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G52970.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagtgaaccatcacacttttctttgttacttttgttcttcctttgtgttttttttggcttctttaatatatgaagtggttctga-gcagGCAATATATTGAATTTCAATGTTGGTGCTACGGTTGATTTGGATGTCCCACGTAGCTTTTGGAATCGCTTGGCTGGGAAGTATGGGAACATTTTCTATTG
           | ||| |    | |  || |||  ||||||    |    |     |||     | | | |   ||  || | |||  |||| || |||||||||||||||||||| |||||||||||||| ||  | || ||||| || |||| |||  |||||||||| || || || || || || ||
---------gtaacaccccaaacctcattgcttaagttcttgaagta---tccaaatgggaaactgattgtgataaccggatttgacacagGGAACATATTGAATTTCAATGTTGGAGCTACGGTTGATTTAGACATACCTCGTAGTTTCTGGAGTCGACTGGCTGGGAAATACGGCAATATGTTTTACTG

upper sequence: GLYMA10G06430.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv08s0040g01400.t01 (Vitis vinifera), 3'ss of exon 4
gtaagtgaaccatcacacttttctttgttacttttgttcttcctttgtgttttttttggcttctttaatatatgaagtggttctgagcagGCAATATATTGAATTTCAATGTTGGTGCTACGGTTGATTTGGATGTCCCACGTAGCTTTTGGAATCGCTTGGCTGGGAAGTATGGGAACATTTTCTATTG
||||  ||  || ||  ||  ||| |       ||   || | |||    ||   |    || | |              || ||  |||| |||||| | ||||||||||| || ||| | |||||||| ||  | |||||||| || ||||  || ||||||||||||||||| ||||| || || ||
gtaaaggattcaacatgctactctct-------ttagactacattttcagttagctgaatttgtct--------------ttttggccagGTAATATACTCAATTTCAATGTGGGGGCTTCAGTTGATTTAGACATTCCACGTAGTTTCTGGAGCCGTTTGGCTGGGAAGTATGGAAACATATTTTACTG
















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|298168689|gb|HO009619.1|HO009619
EST:     CTGGCAAGTAGATGACAGAACAGTTGTTTTTGTTGCTGATCCCACATTTG                         GCAATATATTGAATTT
genomic: CTGGCAAGTAGATGACAGAACAGTTGTTTTTGTTGCTGATCCCACATTTGgtaagtgaac ... ttctgagcagGCAATATATTGAATTT
EST: gi|298187545|gb|HO034694.1|HO034694
EST:     CTGGCAAGTAGATGACAGAACAGTTGTTTT-GTTGCTGATCCCACATTTG                         GCAATATATTGAATTTCAATGTTGGTGCTACGGTTGATTTGGATGTCCCAC
genomic: CTGGCAAGTAGATGACAGAACAGTTGTTTTTGTTGCTGATCCCACATTTGgtaagtgaac ... ttctgagcagGCAATATATTGAATTTCAATGTTGGTGCTACGGTTGATTTGGATGTCCCAC
EST: gi|208063698|gb|GD862846.1|GD862846
EST:     CTGGCAAGTAGATGACAGAACAGTTGTTTTTGTTGCTGATCCCACATTTG                         GCAATATATTGAATTTCAATGTTGGTGCTACGGTTGATTTGGATGTCCCAC
genomic: CTGGCAAGTAGATGACAGAACAGTTGTTTTTGTTGCTGATCCCACATTTGgtaagtgaac ... ttctgagcagGCAATATATTGAATTTCAATGTTGGTGCTACGGTTGATTTGGATGTCCCAC
EST: gi|151402284|gb|EV272097.1|EV272097
EST:     CTGGCAAGTAGATGACAGAACAGTTGTTTTTGTTGCTGATCCCACATTTG                         GCAATATATTGAATTTCAATGTTGGTGCTACGGTTGATTTGGATGTCCCAC
genomic: CTGGCAAGTAGATGACAGAACAGTTGTTTTTGTTGCTGATCCCACATTTGgtaagtgaac ... ttctgagcagGCAATATATTGAATTTCAATGTTGGTGCTACGGTTGATTTGGATGTCCCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttcttcctttgtgttttttttggcttctttaatatatgaagtggttctgagcagGCAATATATTGAATTTCAATGTTGGTGCTACGGTTGATTTGGATGTCCCACGTAGCTTTTGGAATCGCTTGGCTGGGAAGTATGGGAACATTTTCTATTG
                           ctttaat  putative branch site (score: 4)
                         ttctttaatatatgaa  TA-rich tract