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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttatgagtctgctatgccttttgtgcccgagcgagtgcctttctttcagctgtgtaagctaatgagttgtatcttattttttttcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTCCGTGCTCTCCTTGATGTTGGTCTTATTAGGACTACAACCGGTAACCGTG

Basic information

species Glycine max
transcript GLYMA07G06590.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G06590.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os01g67126.1 (Oryza sativa), 3'ss of exon 5
gtatttatgagtctgctatgccttttgtgcccgagcgagtgcctttctttcagctgtgtaagctaatgagttgtatcttattttttttcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTCCGTGCTCTCCTTGATGTTGGTCTTATTAGGACTACAACCGGTAACCGTG
|||   ||        |||   |||| | | | |         | |  |   ||||     | |  |||  |||||  |   |||  |||||| ||||| ||||| || |  || ||||| |||||    |||||||| |||||||||||| | |||||||| || |||||||| || || || |||||||
gtacaaatataatccttataatttttttactcta---------tatgctcatgctggtcttgatcttgatatgtatgattcctttggtcagGCCACTGGGGAGGACTACTATGTTGAACCAGCTGATGAAAGGAGGCCTTTCCGTGCTCTCTTGGATGTTGGCCTCATTAGGACAACCACTGGAAACCGTG

upper sequence: GLYMA07G06590.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM5G815894_T03 (Zea mays), 3'ss of exon 5
gtatttatgagtctgctatgccttttgtgcccgagcgagtgcctttctttcagctgtgtaagctaatgagttgtatcttattttttttcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTCCGTGCTCTCCTTGATGTTGGTCTTATTAGGACTACAACCGGTAACCGTG
     ||  | |  ||||     |||    |  |     |||   | |  ||   || |  ||   |   |||| |||| |  ||  |||||| ||||| ||||| |  || || || || |||||    |||||||| |||||||||||| | |||||||| ||||||||||||||||| || |||||||
----gtaaaatttggctaaa---tttcgatcttattttttgctgatgtcacattggt-tgggcatttatattgtttcttttcgttcatcagGCCACTGGTGAGGACTTCTCTGTTGAGCCAGCTGATGAGAGGAGGCCTTTCCGTGCTCTCTTGGATGTTGGCCTTATTAGGACTACAACTGGGAACCGTG

upper sequence: GLYMA07G06590.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G163081_T04 (Zea mays), 3'ss of exon 5
gtatttatgagtctgctatgccttttgtgcccgagcgagtgcctttctttcagctgtgtaagctaatgagttgtatcttattttttttcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTCCGTGCTCTCCTTGATGTTGGTCTTATTAGGACTACAACCGGTAACCGTG
     ||  | |  || |    | |  | |       | |  ||    ||    ||  |  |    |  |  |  |||| || ||  |||||| ||||| ||||| |  || || || || |||||    |||||||| |||||||||||| | |||||||| ||||| ||||||||||| || |||||||
----gtaaaatttggccaaatatataat-cttattttaatatctgatgttgcattggtttggtatttctgacggttctttttgttcatcagGCCACTGGTGAGGACTTCTCTGTTGAGCCAGCTGATGAGAGGAGGCCTTTCCGTGCTCTCTTGGATGTTGGCCTTATCAGGACTACAACAGGGAACCGTG

upper sequence: GLYMA07G06590.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G090738_T01 (Zea mays), 3'ss of exon 5
-------------gtatttatgagtctgctatgccttttgtgcccgagcgagtgcctttctttcagctgtgtaagctaatgagttgtatc--ttattttttttcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTCCGTGCTCTCCTTGATGTTGGTCTTATTAGGACTACAACCGGTAACCGTG
               || | | | | |  | ||| |  |||        |  ||   ||  ||  | ||   ||  | |  | ||||     || | | || |||||| ||||| ||||| |  || || || || || ||    |||||||| |||||||| ||| | ||||| || |||||||||||||| || || |||||||
gtaaaattaaaacaaatatttaaatttattctgcttgctgtttttttttg--tgatattgctttgggtgaacaa-ttgagcatttgtgatgattttctgttatcagGCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTCCGTGCCCTCTTAGATGTCGGCCTTATTAGGACTACTACTGGAAACCGTG

upper sequence: GLYMA07G06590.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G39740.2 (Arabidopsis thaliana), 3'ss of exon 5
gtatttatgagtctgctatgcc-ttttgtgcccgagcgagtgcctttctttcagctgtgtaagctaatgagttgtatcttattttttt--tcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTCCGTGCTCTCCTTGATGTTGGTCTTATTAGGACTACAACCGGTAACCGTG
|||| |     |||  |||  | | |||      |   |         |||      | | |  |||| |  || |||  | ||  |   |||||| ||||||||||| | ||| ||||||||  ||||   ||| || || ||||||||||| ||||||||||| ||||| |||||||| || || |||||||
gtatgttgtgatcttttatttcatcttgaaaataaagaaacttgagagttttcatcttttga-ttaat-aactgaatcaaaattgatgaatcagGCCACTGGAGAGGACTTTTCTGTGGAACCAACTGATTCCAGAAGACCTTTCCGTGCTCTTCTTGATGTTGGACTTATCAGGACTACCACTGGAAACCGTG

upper sequence: GLYMA07G06590.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G25520.1 (Arabidopsis thaliana), 3'ss of exon 4
gtat-ttatgagtctgctatgccttttgtgcccgagcgagtgcctttctttcagctgtgtaagctaatgagttgtatcttattttttttcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTCCGTGCTCTCCTTGATGTTGGTCTTATTAGGACTACAACCGGTAACCGTG
|||| || || |  || | |    ||  |     |   ||   | || ||   |     |  | ||   | |    ||  |   |   |||||| |||||||| || | |||||| || ||  ||||    ||||| || ||||||||||| ||||||||||| ||||| ||||| ||||| || |||||||
gtatgttgtgtgattggtttcatcttgat-----aataagaagcattgttattgtctctt--gttagaaactcaagtcacacaatgaatcagGCCACTGGAGAAGACTTTTCCGTTGAGCCAACTGATTCAAGGAGACCTTTCCGTGCTCTTCTTGATGTTGGACTTATCAGGACCACAACAGGAAACCGTG

upper sequence: GLYMA07G06590.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv05s0094g00870.t01 (Vitis vinifera), 3'ss of exon 5
-------------------gta-tttatgagtctgctatgccttttgtgcccgagcgagtgcctttctttcagctgtgtaa----gctaatgagttgtat----cttattt---tttttcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTCCGTGCTCTCCTTGATGTTGGTCTTATTAGGACTACAACCGGTAACCGTG
                   ||  |||     |||   |||  || |  | |  |  |   || | |  |  |    ||||     | | || | || | |    | || ||    || | |||| ||||| |||||||| || || |||||  | || |||||||||||||||||||| || ||||||||||| ||| | || || ||||| || |||||||
gtacaattgttagatatctgtgctttccttttctttcatggtttcttggtctcaaggttggcttgttctgtaaagatgtagttttgatgatcacttatctgatgcgtacttgtacttcttagGCAACTGGTGAGGATTACTCTGTTGAACCCACAGATAGCAGGAGGCCATTCCGTGCCCTTCTTGATGTTGGGCTTGTGAGAACAACAACTGGCAACCGTG

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|254340071|gb|GR858196.1|GR858196
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAG                         GCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAGgtatttatga ... tttttttcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|254323520|gb|GR835966.1|GR835966
EST:     CAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAG                         GCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: CAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAGgtatttatga ... tttttttcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|18039738|gb|BM308032.1|BM308032
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAG                         GCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAGgtatttatga ... tttttttcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|308099024|gb|HO760865.1|HO760865
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAG                         GCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAGgtatttatga ... tttttttcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|9203772|gb|BE329996.1|BE329996
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAG                         GCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAGgtatttatga ... tttttttcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|37996752|gb|CF808341.1|CF808341
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAG                         GCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAGgtatttatga ... tttttttcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|17964295|gb|BM271032.1|BM271032
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAG                         GCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAGgtatttatga ... tttttttcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|8282908|gb|BE020469.1|BE020469
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAG                         GCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAGgtatttatga ... tttttttcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|10844117|gb|BF067454.1|BF067454
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAG                         GCTACTGGAGAGGATTATTCCGTGTAACCTGCTGAGAGCATGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAGgtatttatga ... tttttttcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|192333817|gb|FK025078.1|FK025078
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAG                         GCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAGgtatttatga ... tttttttcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|8282719|gb|BE020280.1|BE020280
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAG                         GCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAGgtatttatga ... tttttttcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|10847099|gb|BF069865.1|BF069865
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAG                         GCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAGgtatttatga ... tttttttcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|10845936|gb|BF068951.1|BF068951
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAATGAAATGTTGAC                         GCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAAGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAGgtatttatga ... tttttttcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|15815279|gb|BI787554.1|BI787554
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAG                         GCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAGgtatttatga ... tttttttcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|9258280|gb|BE346427.1|BE346427
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAG                         GCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAGgtatttatga ... tttttttcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagtgcctttctttcagctgtgtaagctaatgagttgtatcttattttttttcagGCTACTGGAGAGGATTATTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTCCGTGCTCTCCTTGATGTTGGTCTTATTAGGACTACAACCGGTAACCGTG
                        agctaat  putative branch site (score: 3)
                                     tatcttattttttttc  putative PPT
                                  ttgtatcttatttttt  TA-rich tract