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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtcaacctaaacttgaattgacattttctgtatatctttgtcctctcggattctcaactctggataatagttatcttacctgttctttggttcatgttaatacagTGTATGCCAAATTGCTATGCCAGGATCATGAGTGTTGGTGACGACGAGAGCCGGATTGTACTCATTGCTAAGACTAACGTGGTTGCCGGTGATGAGTTAA

Basic information

species Glycine max
transcript GLYMA06G13330.1
intron # 22
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G13330.1 (Glycine max), 3'ss of exon 22
lower sequence: AT5G53430.1 (Arabidopsis thaliana), 3'ss of exon 21
gtgagtcaacctaaacttgaattgacattttctgtatatctttgtcctctcggattctcaac---tctggataatagttatcttacctgttctttggttcatgttaatacagTGTATGCCAAATTGCTATGCCAGGATCATGAGTGTTGGTGACGACGAGAGCCGGATTGTACTCATTGCTAAGACTAACGTGGTTGCCGGTGATGAGTTAA
                   ||   ||   |   ||||||   |    |    ||||  ||||   |  |  |  |   |    |||||      ||  |  |||  || ||||||||||||||||||||||| ||||| |||||||| || || ||||| || |||||||| || ||||| ||||| |  || | | || | || |||||||
-----------------gtaagcaacccatcaagtatataaataagttgagtgattaccaacagattagagtcttgagtcctatacctaaatggtgtgttgtgt-gatgcagTGTATGCCAAATTGCTATGCAAGGATTATGAGTGTAGGAGATGACGAAAGTCGGATTGTTCTGATTGCCAAGACCACTGTAGCTTCCTGCGAGGAGTTAA

upper sequence: GLYMA06G13330.1 (Glycine max), 3'ss of exon 22
lower sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 22
gtgagtcaacctaaacttgaattgacattttctgtatatctttgtcctctcggattctcaactctggataatagttatcttacctgttctttggttcatgttaatacagTGTATGCCAAATTGCTATGCCAGGATCATGAGTGTTGGTGACGACGAGAGCCGGATTGTACTCATTGCTAAGACTAACGTGGTTGCCGGTGATGAGTTAA
 | |  ||||  |   ||     ||| |   ||| ||     || | | | |   | | |  | |    | |  | || | | |     | |  ||| | | || |||||||   || || |||||||| |||||||||||||| |||||||| |||||| ||||||| || ||||||||||| || || | ||| || |||||| |||
ataatacaacaaatgattccccagacttaaactgaat----ctgccttattg--ctttaatttatatgcatttttcat-taatccaaattatatttc-tatgaa-acagTGTGCCCCCAACTGCTATGCAAGGATCATGAGTGTGGGTGACGATGAGAGCAGGATTGTTCTTATTGCTAAGACCAATGTCGCTGCTGGCGATGAGCTAA
















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|16105061|gb|BI892801.1|BI892801
EST:     TGGTAGATGCCACTGATAAAGGGAATATAGCTCGGCTGATTAATCATTCT                         TGTATGCCAAATTGCTATGCCAGGATCATGAGTGTTGGTGACGACGAGAGC
genomic: TGGTAGATGCCACTGATAAAGGGAATATAGCTCGGCTGATTAATCATTCTgtgagtcaac ... gttaatacagTGTATGCCAAATTGCTATGCCAGGATCATGAGTGTTGGTGACGACGAGAGC
EST: gi|208314326|gb|GE111744.1|GE111744
EST:     ATTAATCATTCT                         TGTATGCCAAATTGCTATGCCAGGATCATGAGTGTTGGTGACGACGAGAGC
genomic: ATTAATCATTCTgtgagtcaac ... gttaatacagTGTATGCCAAATTGCTATGCCAGGATCATGAGTGTTGGTGACGACGAGAGC
EST: gi|207832561|gb|GD804847.1|GD804847
EST:     TGGTAGATGCCACTGATAAAGGGAATATAGCTCGGCTGATTAATCATTCT                         TGTATGCCAAATTGCTATGCCAGGATCATGAGTGTTGGTGACGACGAGAGC
genomic: TGGTAGATGCCACTGATAAAGGGAATATAGCTCGGCTGATTAATCATTCTgtgagtcaac ... gttaatacagTGTATGCCAAATTGCTATGCCAGGATCATGAGTGTTGGTGACGACGAGAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctcaactctggataatagttatcttacctgttctttggttcatgttaatacagTGTATGCCAAATTGCTATGCCAGGATCATGAGTGTTGGTGACGACGAGAGCCGGATTGTACTCATTGCTAAGACTAACGTGGTTGCCGGTGATGAGTTAA
                                            tgttaat  putative branch site (score: 3)
             ataatagttatctta  TA-rich tract