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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttatgaatttgctatgctgtgtgtgtgtgtgtgcaactgctgcctttctctcagttttgttaattaattggttgtatccttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTCCGTGCTCTCCTTGATGTTGGTCTTATTAGGACTACAACTGGCAACCGTG

Basic information

species Glycine max
transcript GLYMA16G03170.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G03170.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os01g67126.1 (Oryza sativa), 3'ss of exon 5
gtatttatgaatttgctatgctgtgtgtg-tgtgtgtgcaactgctgcctttctctcagttttgttaattaattggttgtatccttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTCCGTGCTCTCCTTGATGTTGGTCTTATTAGGACTACAACTGGCAACCGTG
|||   ||  | |   |||  | | | |  | | | |||   |||||      |||   | ||| ||  ||  || ||     | |||  |||||| ||||| |||||||| |  || ||||| |||||    |||||||| |||||||||||| | |||||||| || |||||||| || ||||| |||||||
gtacaaatataatccttataatttttttactctatatgctcatgctgg-----tcttgatcttgatatgta--tgatt-----cctttggtcagGCCACTGGGGAGGACTACTATGTTGAACCAGCTGATGAAAGGAGGCCTTTCCGTGCTCTCTTGGATGTTGGCCTCATTAGGACAACCACTGGAAACCGTG

upper sequence: GLYMA16G03170.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os01g67134.1 (Oryza sativa), 3'ss of exon 5
gtatttatgaatttgctatgctgtgtgtg-tgtgtgtgcaactgctgcctttctctcagttttgttaattaattggttgtatccttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTCCGTGCTCTCCTTGATGTTGGTCTTATTAGGACTACAACTGGCAACCGTG
|||   ||  | |   |||    | | |  | | | |||   ||||       |     ||||| |  || ||  ||   || | |||  | |||| ||||| |||||||| |  || ||||| |||||    ||| |||| |||||||||||| | |||||||| || |||||||| || ||||| |||||||
gtacaaatacaatccttataaattttttactctatatgctcatgct-----catgctgattttgatc-ttgatatgtatgattcctttggttagGCCACTGGGGAGGACTACTATGTTGAACCAGCTGATGAAAGGCGGCCTTTCCGTGCTCTCTTGGATGTTGGCCTCATTAGGACAACCACTGGAAACCGTG

upper sequence: GLYMA16G03170.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM5G815894_T03 (Zea mays), 3'ss of exon 5
gtatttatgaatttgctatgctgtgtgtgtgtgtgtgcaactgctgcctttctctcagttttgttaattaattggttgtatccttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTCCGTGCTCTCCTTGATGTTGGTCTTATTAGGACTACAACTGGCAACCGTG
     ||  | || ||||   |  |    | | | |     |||||   |    |  |||  |  | |||  | |||   |    |||||||||| ||||| |||||||  || || || || |||||    |||||||| |||||||||||| | |||||||| |||||||||||||||||||| |||||||
----gtaaaatttggctaaatttcgatcttattttt-----tgctgatgtcacattggttgggc-atttatattgtttcttttcgttcatcagGCCACTGGTGAGGACTTCTCTGTTGAGCCAGCTGATGAGAGGAGGCCTTTCCGTGCTCTCTTGGATGTTGGCCTTATTAGGACTACAACTGGGAACCGTG

upper sequence: GLYMA16G03170.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G163081_T04 (Zea mays), 3'ss of exon 5
gtatttatgaatttgctatgctgtgtgtgtgtgtgtgcaactgctgcctttctctcagttttgttaattaattggttgtatccttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTCCGTGCTCTCCTTGATGTTGGTCTTATTAGGACTACAACTGGCAACCGTG
     ||  | || || |   | | |     | | |  ||   |||   ||   |  |||| ||   |     |||| | |  | |||||||||| ||||| |||||||  || || || || |||||    |||||||| |||||||||||| | |||||||| ||||| ||||||||||| || |||||||
----gtaaaatttggccaaa-tatataatcttattt-taatatctgatgttgcattggtttggtatttctgacggttct-ttttgttcatcagGCCACTGGTGAGGACTTCTCTGTTGAGCCAGCTGATGAGAGGAGGCCTTTCCGTGCTCTCTTGGATGTTGGCCTTATCAGGACTACAACAGGGAACCGTG

upper sequence: GLYMA16G03170.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G090738_T01 (Zea mays), 3'ss of exon 5
-------------gtatttatgaatttgctatgctgtgtgtgtgtgtgtgcaactgctgcctttctctcagttttgttaattaattggttgtatccttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTCCGTGCTCTCCTTGATGTTGGTCTTATTAGGACTACAACTGGCAACCGTG
               || | | |||||  | ||||   ||| | | | ||  | |  ||| ||      |   |||   |||  |  | ||  |   | | ||||||| ||||| |||||||  || || || || || ||    |||||||| |||||||| ||| | ||||| || |||||||||||||| ||||| |||||||
gtaaaattaaaacaaatatttaaatttattctgcttgctgtttttttttgtga-tattgctttgggtgaacaattgagcatttgt--gatgattttctgttatcagGCCACTGGTGAGGACTTCTCTGTCGAGCCAGCGGAAGAGAGGAGGCCTTTCCGTGCCCTCTTAGATGTCGGCCTTATTAGGACTACTACTGGAAACCGTG

upper sequence: GLYMA16G03170.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G39740.2 (Arabidopsis thaliana), 3'ss of exon 5
gtatttatgaatttgctatgctgtgtgtgtgtgtgtgcaactgctgcctttctctcagttttgttaattaattggttgtatccttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTCCGTGCTCTCCTTGATGTTGGTCTTATTAGGACTACAACTGGCAACCGTG
|||| |    || |  |||    | | ||    |    ||         || ||    |||  ||||| | |   |   |     |  ||||||| ||||||||||||| ||| ||||||||  ||||   ||| || || ||||||||||| ||||||||||| ||||| |||||||| ||||| |||||||
gtatgttgtgatcttttatttcatct-tgaaaataaagaaacttgagagttttcatcttttgattaataactgaatcaaaattgatgaatcagGCCACTGGAGAGGACTTTTCTGTGGAACCAACTGATTCCAGAAGACCTTTCCGTGCTCTTCTTGATGTTGGACTTATCAGGACTACCACTGGAAACCGTG

upper sequence: GLYMA16G03170.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G25520.1 (Arabidopsis thaliana), 3'ss of exon 4
gtat-ttatgaatttgctatgctgtgtgtgtgtgtgtgcaactgctgcctttctctcagttttgttaattaattggttgtatccttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTCCGTGCTCTCCTTGATGTTGGTCTTATTAGGACTACAACTGGCAACCGTG
|||| || ||   |||    | |   | |   |      ||    ||   || ||||    ||||||   | |    |  |  |  |  ||||||| |||||||| |||| ||| || || ||  ||||    ||||| || ||||||||||| ||||||||||| ||||| ||||| ||||| || |||||||
gtatgttgtgtgattg----gtttcatcttgataataagaagcattgttattgtctc----ttgttagaaactcaagt-cacacaatgaatcagGCCACTGGAGAAGACTTTTCCGTTGAGCCAACTGATTCAAGGAGACCTTTCCGTGCTCTTCTTGATGTTGGACTTATCAGGACCACAACAGGAAACCGTG

upper sequence: GLYMA16G03170.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv05s0094g00870.t01 (Vitis vinifera), 3'ss of exon 5
-------------gtatttatgaatttgctatgctgtgtg-tgtgtgtgtgcaactgctgcctttctct---------cagttttgttaattaattg---gttgtatcctt---ttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTCCGTGCTCTCCTTGATGTTGGTCTTATTAGGACTACAACTGGCAACCGTG
              ||| | ||  ||   | |  |   || | | |  ||   |  | || |||  |||          ||||||| | || | ||    | ||  | |||    |  | |||| ||||| ||||| || || || |||||  | || |||||||||||||||||||| || ||||||||||| ||| | || || ||||||||||||||||
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|7041875|gb|AW471769.1|AW471769
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAG                         GCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAGgtatttatga ... ttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|21602194|gb|BQ612525.1|BQ612525
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAG                         GCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAGgtatttatga ... ttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|4436984|gb|AI522849.1|AI522849
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAG                         GCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCCAT-
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAGgtatttatga ... ttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCC-ATT
EST: gi|192315894|gb|FK008595.1|FK008595
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAG                         GCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAGgtatttatga ... ttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|13252441|gb|BG363352.1|BG363352
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAG                         GCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAGgtatttatga ... ttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|6848438|gb|AW350728.1|AW350728
EST:     GAGTCNTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAG                         GCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAGgtatttatga ... ttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|15336852|gb|BI497508.1|BI497508
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAG                         GCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAGgtatttatga ... ttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|4397465|gb|AI496462.1|AI496462
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAG                         GCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAGgtatttatga ... ttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|19268986|gb|BM885242.1|BM885242
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAG                         GCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAGgtatttatga ... ttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|192308475|gb|FK001377.1|FK001377
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAG                         GCTACTGGAGAGGACTATTCAGTGGAACCTGTTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAGgtatttatga ... ttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|209701098|gb|BW664200.1|BW664200
EST:     GAGTCCTCAAAACACTTGAAATGGACGAGGAGTACGAAGGAAATGTTGAG                         GCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAGgtatttatga ... ttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|192317627|gb|FK007581.1|FK007581
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAG                         GCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAGgtatttatga ... ttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|207837508|gb|GD809814.1|GD809814
EST:     GAGTCCTCAAAACACTTGAAATGGATAAGGAGTACGAAGGAAATGTTGAG                         GCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAGgtatttatga ... ttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|7233168|gb|AW568517.1|AW568517
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAG                         GCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAGgtatttatga ... ttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|151393465|gb|EV263340.1|EV263340
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAG                         GCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAGgtatttatga ... ttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|18040030|gb|BM308324.1|BM308324
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAG                         GCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAGgtatttatga ... ttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|7284984|gb|AW597471.1|AW597471
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAG                         GCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAGgtatttatga ... ttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|15814259|gb|BI786534.1|BI786534
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAG                         GCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAGgtatttatga ... ttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|192315893|gb|FK008594.1|FK008594
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAG                         GCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAGgtatttatga ... ttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|151412354|gb|EV282166.1|EV282166
EST:     GAGTCCTCAAAACACTTGAAGTGGATGAGGAGTACGAAGGAAATGTTGAG                         GCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAGgtatttatga ... ttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|42722855|gb|CK768754.1|CK768754
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAG                         GCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAGgtatttatga ... ttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
EST: gi|192317628|gb|FK007582.1|FK007582
EST:     GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAG                         GCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC
genomic: GAGTCCTCAAAACACTTGAAATGGATGAGGAGTACGAAGGAAATGTTGAGgtatttatga ... ttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactgctgcctttctctcagttttgttaattaattggttgtatccttttcatcagGCTACTGGAGAGGACTATTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTCCGTGCTCTCCTTGATGTTGGTCTTATTAGGACTACAACTGGCAACCGTG
                           aattaat  putative branch site (score: 3)
                                          tccttttcatc  putative PPT
                  agttttgttaattaat  TA-rich tract