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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaatcgatcattgtatattgtgtttacatgggctgtccttgatctttcccttttaaatttgatattcataaatcataactgaaactggacacgttctttgtacttacaatttctgttgtacctggtagTTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATATTGATGCAAACACTGGTGATCCTCAAGTTG

Basic information

species Glycine max
transcript GLYMA17G07380.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G07380.1 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os07g47290.3 (Oryza sativa), 3'ss of exon 14
gtgaatcgatcattgtatattgtgtttacatgggctgtccttgatctttcccttttaaatttgatattcataaatcataactgaaactggac-acgttctttgtacttacaatttctgttgtacctggtagTTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATATTGATGCAAACACTGGTGATCCTCAAGTTG
                                                       | | |||  |  |     | | | | | ||  | |   ||  |    ||  | | || | |      |  | | || || || |||||||| || |||||||| || |||||  |||| || ||||||||||| |||||||||||||| ||  | |
------------------------------------------------------gttagtttcttgcttccctaacgtcattcaaggtagcttacagtggcagtg-tcataactccatggaaaatttgcagCTGCCACCATGAGCTTGAGACTGCAAGAATTAATGGTCTGCTTGGGAATATTGATGCCAACACTGGTGATCCCCAGATCG

upper sequence: GLYMA17G07380.1 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G544990_T01 (Zea mays), 3'ss of exon 12
gtgaatcgatcattgtatattgtgtttacatgggctgtccttgatctttcccttttaaatttgatattcataaatcataactgaaactggacacgttctttgtacttacaatttctgttgtacctggtagTTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATATTGATGCAAACACTGGTGATCCTCAAGTTG
                     | ||  |     |||   ||  ||||   |   | |||  |  | ||  |     | || |||        |     |    | || ||     ||||  || ||  || || ||||||||  | || |||||| |||| |||||  |||| || ||||| ||||||||||||||||||||||||||||
---------------------gagtgcaaccatgctactct--atctggacacatgaaaggtttttttgcttggcta-aattgagttgaataatagcttaaagatttgca-----tgttaaacttg-cagCTGCCATCATGAATTGGAGACTGCACGGATTAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTG

upper sequence: GLYMA17G07380.1 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G081682_T01 (Zea mays), 3'ss of exon 14
gtgaatcgatcattgtatattgtgtttacatgggctgtccttgatctttcccttttaaatttgatattcataaatcataactgaaactggacacgttctttgtacttacaatttctgttgtacctggtagTTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATATTGATGCAAACACTGGTGATCCTCAAGTTG
                                                       |||  ||  | | | |    | ||| |  |  || | |  |   ||  |     | |   ||||  || ||  || || ||||||||  | || |||||| |||| |||||  |||| || ||||| ||||||||||||||||||||||||||||
------------------------------------------------------gtaaggtttttttgcttg---cctaaattgagttgaata-atagcttaaa---gaactgcatgttaaacttg-cagCTGCCATCATGAATTGGAGACTGCACGGATTAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTG

upper sequence: GLYMA17G07380.1 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G427620_T01 (Zea mays), 3'ss of exon 7
gtgaat-cgatcattgtatattgtgtttacatgggctgtccttgatctttcccttttaaatttgatattcataaatcataactgaaactggacacgttctttgtacttacaatttctgttgtacctggtagTTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATATTGATGCAAACACTGGTGATCCTCAAGTTG
  || | | | |||  ||   | | |  |||  ||      ||  | || |     ||||||   |     | ||| ||| || |||                 | || ||     ||||  || ||  || || ||||||||  | || |||||| |||| |||||  |||| || ||||| ||||||||||||||||||||||||||||
--gagtgcaaccatgctactctatctggacacaggaaaggttt--ttttgcttggctaaattgagt-----tgaataatagcttaaag----------------atttgca-----tgttaaacttg-cagCTGCCATCATGAATTGGAGACTGCACGGATTAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTG

upper sequence: GLYMA17G07380.1 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G005493_T01 (Zea mays), 3'ss of exon 14
gtgaatcgatcattgtatattgtgtttacatgggctgtccttgatctttcccttttaaatttgatattcataaatcataactgaaactggacacgttctttgtacttacaatttctgttgtacctggtagTTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATATTGATGCAAACACTGGTGATCCTCAAGTTG
                                                                || |  |    | |  || |     | ||  |  ||| |      | |   ||||  || ||  || || |||||||| || || |||||| | || |||||  |||| || || |||||||||||||||||||||||||||||||
---------------------------------------------------------------gtaatttttttgcttgcctaacttcagtcatataatttcttaaagaactacatgttaaacttg-cagCTGCCATCATGAACTGGAGACTGCACGCATTAATGGGCTGCTTGGGAACATTGATGCAAACACTGGTGATCCTCAAGTTG

upper sequence: GLYMA17G07380.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv11s0052g01710.t01 (Vitis vinifera), 3'ss of exon 15
gtgaatcgatcattgtatattgtgtttacatgggctgtccttgatctttcccttttaaatttga---tattcataaatcataactgaa--actggacacgttctttgtacttacaatttctgttgtacctggtagTTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATATTGATGCAAACACTGGTGATCCTCAAGTTG
       | |  |  |||| | |  || ||   ||| |   | || | |  | |  |  ||||    | ||  |  || || ||| ||  |    ||   |||||| |       | |     ||||||  | || |||||||||||||| || ||||||||  ||||||| || ||||| ||||||||||| |||||||| || |||||| |||
-------gtttgtcctataattttgtttca--agct-tttctaatgtcttgcctgcatgtttgtagctttttcttgataatcacttaaggataaaactacttctttatgaactttactatgtgtgtaccatgcagCTGTCATCATGAGCTTGAGACTGCAAGACTCAATGGTTTACTGGGAAATATTGATGCTAACACTGGCGACCCTCAAATTG

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|151410382|gb|EV280197.1|EV280197
EST:     GAATTCAAACTCAACATAGAGTGCAACCATGCCACCCTCTCTGGCCACAG                         TTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATAT
genomic: GAATTCAAACTCAACATAGAGTGCAACCATGCCACCCTCTCTGGCCACAGgtgaatcgat ... tacctggtagTTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATAT
EST: gi|151407803|gb|EV277618.1|EV277618
EST:     GAATTCAAACTCAACATAGAGTGCAACCATGCCACCCTCTCTGGCCACAG                         TTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATAT
genomic: GAATTCAAACTCAACATAGAGTGCAACCATGCCACCCTCTCTGGCCACAGgtgaatcgat ... tacctggtagTTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATAT
EST: gi|51335738|gb|CO979604.1|CO979604
EST:     GAATTCAAACTCAACATAGAGTGCAACCATGCCACCCTCTCTGGCCACAG                         TTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATAT
genomic: GAATTCAAACTCAACATAGAGTGCAACCATGCCACCCTCTCTGGCCACAGgtgaatcgat ... tacctggtagTTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATAT
EST: gi|10235983|gb|BE804871.1|BE804871
EST:     GAATTCAAACTCAACATAGAGTGCAACCATGCCACCCTCTCTGGCCACAG                         TTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATAT
genomic: GAATTCAAACTCAACATAGAGTGCAACCATGCCACCCTCTCTGGCCACAGgtgaatcgat ... tacctggtagTTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATAT
EST: gi|19934808|gb|BQ079838.1|BQ079838
EST:     CAAACTCAACATAGAGTGCAACCATGCCACCCTCTCTGGCCACAG                         TTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATAT
genomic: CAAACTCAACATAGAGTGCAACCATGCCACCCTCTCTGGCCACAGgtgaatcgat ... tacctggtagTTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATAT
EST: gi|5760217|gb|AI965580.1|AI965580
EST:     GAATTCAAACTCAACATAGAGTGCAACCATGCCACCCTCTCTGGCCACAG                         TTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATAT
genomic: GAATTCAAACTCAACATAGAGTGCAACCATGCCACCCTCTCTGGCCACAGgtgaatcgat ... tacctggtagTTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATAT
EST: gi|207762590|gb|GD733437.1|GD733437
EST:     GAATTCAAACTCAACATAGAGTGCAACCATGCCACCCTCTCTGGCCACAG                         TTTGTCATCATGA
genomic: GAATTCAAACTCAACATAGAGTGCAACCATGCCACCCTCTCTGGCCACAGgtgaatcgat ... tacctggtagTT-GTCATCATGA
EST: gi|192327522|gb|FK018198.1|FK018198
EST:     GGATTCAAACTCAACATAGAGTGCAACCATGCCACCCTCTCTGGCCACAG                         TTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATAT
genomic: GAATTCAAACTCAACATAGAGTGCAACCATGCCACCCTCTCTGGCCACAGgtgaatcgat ... tacctggtagTTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATAT
EST: gi|298193926|gb|HO040574.1|HO040574
EST:     GAATTCAAACTCAACATAGAGTGCAACCATGCCACCCTCTCTGGCCACAG                         TTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATAT
genomic: GAATTCAAACTCAACATAGAGTGCAACCATGCCACCCTCTCTGGCCACAGgtgaatcgat ... tacctggtagTTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATAT
EST: gi|193493506|gb|FK460088.1|FK460088
EST:     GAATTCAAACTCAACATAGAGTGCAACCATGCCACCCTCTCTGGCCACAG                         TTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATAT
genomic: GAATTCAAACTCAACATAGAGTGCAACCATGCCACCCTCTCTGGCCACAGgtgaatcgat ... tacctggtagTTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATAT
EST: gi|16276935|gb|BI942118.1|BI942118
EST:     GAATTCAAACTCAACATAGAGTGCAACCATGCCACCCTCTCTGGCCACAG                         TTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATAT
genomic: GAATTCAAACTCAACATAGAGTGCAACCATGCCACCCTCTCTGGCCACAGgtgaatcgat ... tacctggtagTTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATAT
EST: gi|13478586|gb|BG508003.1|BG508003
EST:     GAATTCAAACTCAACATAGAGTGCAACCATGCCACCCTCTCTGGCCACAG                         TTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATAT
genomic: GAATTCAAACTCAACATAGAGTGCAACCATGCCACCCTCTCTGGCCACAGgtgaatcgat ... tacctggtagTTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cataactgaaactggacacgttctttgtacttacaatttctgttgtacctggtagTTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATATTGATGCAAACACTGGTGATCCTCAAGTTG
                           tacttac  putative branch site (score: 1)
                              ttacaattt  TA-rich tract