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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGTTGCACTATCTCTGCCGTAAATGCGCATCGCAGCCTATCGCCGTTCCCATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCGgtaacattatcttcaacttctgatatattcttattcttaattcttaattcattcattttttgaattgttattgtacag

Basic information

species Glycine max
transcript GLYMA04G42800.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G42800.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os01g66120.1 (Oryza sativa), 5'ss of exon 1
GTGTTGCACTATCTCTGCCGTAAATGCGCATCGCAGCCTATCGCCGTTCCCATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCGgtaacattatcttc-------aacttctgatatattcttattcttaattc---------ttaattcattcattt--tttgaattgt---tattgtacag
||| ||||||| ||||||||    |||||    |  || |||||||| |||||||||||||| |||||||||||||| | ||| || ||| | || ||| |||  || ||| ||       | | ||  |   ||    |   | ||  |         || ||| ||| ||||  ||||| ||||   | ||||  ||
GTGATGCACTACCTCTGCCGCCGCTGCGCCGGCCTCCCCATCGCCGTCCCCATCATCGCCGAGATCGACCTCTACAAGTTCGATCCATGGCAGCTTCCCCgtacgataatcctcctcctccatcctcccaatcatcaccaccatcaacgccgtcgtgaattgattgattgatttggtttgatttgttggtgttgtgtag

upper sequence: GLYMA04G42800.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os05g34830.1 (Oryza sativa), 5'ss of exon 1
GTGTTGCACTATCTCTGCCGTAAATGCGCATCGCAGCCTATCGCCGTTCCCATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCGgtaacattatcttcaacttctgatatattcttattcttaattcttaat-tcattcattttttgaat-tgttattgtacag
||| ||||||| ||||||||    |||||    |  || |||||||| ||||||||||||||  ||||||||||||| | ||| || ||| | || ||  ||| | |  ||||| |  ||     |      || |  | || |   |    |||||   | |    ||      | |||
GTGATGCACTACCTCTGCCGGCGGTGCGCCGGCCTCCCCATCGCCGTCCCCATCATCGCCGAGGTCGACCTCTACAAGTTCGATCCATGGCATCTCCCAAgta-cgtc-tcttccatctccctcctccatccatgcaaacttatagctactgttcatcgatcgtccatgactccatgcag

upper sequence: GLYMA04G42800.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os05g34830.2 (Oryza sativa), 5'ss of exon 1
-----------------------GTGTTGCACTATCTCTGCCGTAAATGCGCATCGCAGCCTATCGCCGTTCCCATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCGgtaacattatcttcaacttctgatatattcttattcttaattcttaattc-attcattttttgaat-tgttattgtacag
                       ||| ||||||| ||||||||    |||||    |  || |||||||| ||||||||||||||  ||||||||||||| | ||| || ||| | || ||  ||| | |  ||||| |  ||     |      || |  | || |   | |  |||||   | |    ||      | |||
TCCACCCGACGGACGAGGAGCTGGTGATGCACTACCTCTGCCGGCGGTGCGCCGGCCTCCCCATCGCCGTCCCCATCATCGCCGAGGTCGACCTCTACAAgttcgatccatggcatctcccaagta-cgtc-tcttccatctccctcctccatccatgcaaacttatagctactgttcatcgatcgtccatgactccatgcag

upper sequence: GLYMA04G42800.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G014653_T03 (Zea mays), 5'ss of exon 1
GTGTTGCACTATCTCTGCCGTAAATGCGCATCGCAGCCTATCGCCGTTCCCATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCGgta----acattatcttcaacttctgatatattcttattcttaattcttaattcattcattttttgaat-tgttattgtacag---------------------------------
||| ||||||| ||||||||    |||||    | ||| |||||||| |||||||||||||| |||||||||||||| | |||||| ||| | || ||  |||     | |  || ||    |    |  |     | |   |    | ||   |||   | |  |    ||    ||   ||                                 
GTGATGCACTACCTCTGCCGCCGCTGCGCCGGCCTGCCCATCGCCGTCCCCATCATCGCCGAGATCGACCTCTACAAGTTCGACCCATGGCAGCTCCCAAgtacgtcccgtcgtcctcggtcttct-tgcagcagcagtagcagccgtgaaccaatttcctgtgcggccgtgacgatggcgagctaatcgatcgattgctaactctctgtgtgcag

upper sequence: GLYMA04G42800.1 (Glycine max), 5'ss of exon 1
lower sequence: AT1G01720.1 (Arabidopsis thaliana), 5'ss of exon 1
GTGTTGCACTATCTCTGCCGTAAATGCGCATCGCAGCCTATCGCCGTTCCCATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCGgtaacat--tatcttcaact---tctgatatattcttattcttaattcttaattcattcattttt---tgaattgttattgtacag
||  |||||||||||||||| ||||| || || ||| | ||||||||||| |||||||| || ||||| |||||||||||||| || ||||| || || ||| ||||  || ||     |   | | || | | |    |  ||| ||| |  |  |||  |  |   | || |   ||| |||||
GTCATGCACTATCTCTGCCGCAAATGTGCCTCTCAGTCCATCGCCGTTCCGATCATCGCTGAGATCGATCTCTACAAATACGATCCATGGGAGCTTCCTGgtgacatactagctctctttctctttaatctttgccggattctaaatctgagattgttctctgctgactcaaattcaattttacag

upper sequence: GLYMA04G42800.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv18s0001g02300.t01 (Vitis vinifera), 5'ss of exon 1
GTGTTGCACTATCTCTGCCGTAAATGCGCATCGCAGCCTATCGCCGTTCCCATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCGgtaac----attatcttcaacttctgatatattcttattcttaattcttaattcattcattttt--tgaattgttattgtacag---------
||| |||||||||| ||||||||||| ||||||||  | |||||||| || ||||| |||||||| || |||||||||| ||| |||||| | || || |||||     ||||| ||||  || |  | |||| || |||| || ||  ||    |  ||||||  | ||  |  |||               
GTGATGCACTATCTGTGCCGTAAATGTGCATCGCAATCGATCGCCGTGCCGATCATTGCCGAAATTGATCTCTACAAATTCGATCCCTGGCAGCTTCCTGgtaattattattattttcatttttttgt-tattttt-ttctgaactcccaaaatttggatttttatttaagggggatttggtgatttgaacag

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|17401487|gb|BM178269.1|BM178269
EST:     CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCG                         GATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
genomic: CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCGgtaacattat ... tattgtacagGATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
EST: gi|254345506|gb|GR851668.1|GR851668
EST:     CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCG                         GATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
genomic: CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCGgtaacattat ... tattgtacagGATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
EST: gi|19453464|gb|BM954874.1|BM954874
EST:     CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCG                         GATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
genomic: CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCGgtaacattat ... tattgtacagGATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
EST: gi|15812832|gb|BI785107.1|BI785107
EST:     CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCG                         GATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
genomic: CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCGgtaacattat ... tattgtacagGATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
EST: gi|209708546|gb|BW668157.1|BW668157
EST:     CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCG                         GATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
genomic: CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCGgtaacattat ... tattgtacagGATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
EST: gi|20811624|gb|BQ296102.1|BQ296102
EST:     CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCG                         GATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
genomic: CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCGgtaacattat ... tattgtacagGATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
EST: gi|254338578|gb|GR845721.1|GR845721
EST:     CGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCG                         GATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
genomic: CGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCGgtaacattat ... tattgtacagGATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
EST: gi|298172091|gb|HO021683.1|HO021683
EST:     CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCG                         GATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
genomic: CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCGgtaacattat ... tattgtacagGATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
EST: gi|19453545|gb|BM954955.1|BM954955
EST:     CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCG                         GATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
genomic: CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCGgtaacattat ... tattgtacagGATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
EST: gi|20811728|gb|BQ296206.1|BQ296206
EST:     CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCG                         GATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
genomic: CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCGgtaacattat ... tattgtacagGATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
EST: gi|298181418|gb|HO022857.1|HO022857
EST:     CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCG                         GATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
genomic: CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCGgtaacattat ... tattgtacagGATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
EST: gi|261497080|gb|GT185255.1|GT185255
EST:     CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCG                         GATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
genomic: CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCGgtaacattat ... tattgtacagGATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
EST: gi|298171680|gb|HO021272.1|HO021272
EST:     CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCG                         GATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
genomic: CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCGgtaacattat ... tattgtacagGATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
EST: gi|298179565|gb|HO028036.1|HO028036
EST:     CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCG                         GATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
genomic: CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCGgtaacattat ... tattgtacagGATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
EST: gi|298184586|gb|HO029799.1|HO029799
EST:     CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCG                         GATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
genomic: CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCGgtaacattat ... tattgtacagGATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
EST: gi|254319224|gb|GR830572.1|GR830572
EST:     CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCG                         GATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC
genomic: CATCATCGCCGAAATCGACCTCTACAAATACGACCCCTGGGACCTACCCGgtaacattat ... tattgtacagGATTGGCTTCCTACGGAGAGAAAGAGTGGTACTTCTTTTCACCACGGGACC