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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgtactttataattgctattaattcattcattgcatcagtgcagtaatatatagatgtttaacaatattagttttggtagATTGGAAAGGGATCGCGAGGTGATGTTACCATATTGCCTACTCTTGTTGTCAATAATCGACAATATCGAG

Basic information

species Glycine max
transcript GLYMA11G00370.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G00370.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os10g20630.1 (Oryza sativa), 3'ss of exon 3
-----------------------------------------------------gtattgtactttataattgctattaattcatt-cattgcatcagtgcagtaatatatagatgtttaaca---atattagttttg-gtagATTGGAAAGGGATCGCGAGGTGATGTTACCATATTGCCTACTCTTGTTGTCAATAATCGACAATATCGAG
                                                     ||| ||||   ||  ||   |     || ||| | ||  |  |  ||  |||||| |   ||||| | |    |   | | ||| ||||||||| || |||||  |||| |||||||| |||||||||||||||||||| || ||||| ||||| ||||
gtgaatttaccttgtgatgtgttggttattgttatatttatcagtaaattgaagtactgtaaactagtatatttgaatgtttattaccttttaataccgctttaatatctttgtgtttgatatgagttacaatgttgcgtagATTGGGAAAGGATCAAGAGGAGATGTTACTATATTGCCTACTCTTGTTGTGAACAATCGGCAATACCGAG

upper sequence: GLYMA11G00370.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G303631_T01 (Zea mays), 3'ss of exon 3
------------------------------------------------------------------------gtattgtactttataattgctattaattcattcattgcatcagtgcagtaatatat--------agatgtttaacaatattagttttggtagATTGGAAAGGGATCGCGAGGTGATGTTACCATATTGCCTACTCTTGTTGTCAATAATCGACAATATCGAG
                                                                         | |   |  | | | |  ||    | |  |||||||      | | ||  |  ||        || |  ||     | |||  ||   |||||||| || || ||  |||| |||||||| ||||||||||| |||||||| || || || ||||||||||
gtgaagtgacctagcatattatgtagtttgtcgtggagcttttattagtaaaataaagcacacagatttattttttaaaatataacagtcactgcagactatttcattgaccttttaccgtccttcattatctatgagttaatttgtgctgttatattgtatagATTGGGAAAGGTTCAAGAGGAGATGTTACTATATTGCCTACACTTGTTGTGAACAACCGGCAATATCGAG

upper sequence: GLYMA11G00370.1 (Glycine max), 3'ss of exon 3
lower sequence: AC211785.2_FGT003 (Zea mays), 3'ss of exon 1
-------------------------------------------------------------------------------gtattgtactttataattgctatta-attcattcattgcatcagtgcagtaatatatagatgtttaacaatattagttttggtagATTGGAAAGGGATCGCGAGGTGATGTTACCATATTGCCTACTCTTGTTGTCAATAATCGACAATATCGAG
                                                                                |||   |||   |     |||||  ||| |    || |     | || ||      || |  ||     | |||  ||   |||||||| || || ||  |||| |||||||| ||||||||||| |||||||| || || || ||||||||||
gtgaagtgacctagcatattatgtagtttgtcgtggaccttttattagtaaaataaagcacacatatttattttttaaaatataacactcactgcagactatttcattgaccttttaccgtccttcattatctatgagttaatttgtgttgttatattgtatagATTGGGAAAGGTTCAAGAGGAGATGTTACTATATTGCCTACACTTGTTGTGAACAACCGGCAATATCGAG

upper sequence: GLYMA11G00370.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G328265_T01 (Zea mays), 3'ss of exon 4
------------------------------------------------------------------------gtattgtactttataattgctattaattcattcattgcatcagtgcagtaatatat--------agatgtttaacaatattagttttggtagATTGGAAAGGGATCGCGAGGTGATGTTACCATATTGCCTACTCTTGTTGTCAATAATCGACAATATCGAG
                                                                         | |   |  | | | |  ||    | |  |||||||      | | ||  |  ||        || |  ||     | |||  ||   |||||||| || || ||  || | |||||||| ||||||||||| |||||||| || || || ||||||||||
gtgaagtgacctagcatattatgtagtttgtcgtggaccttttattagtaaaataaagcacacatatttattttttaaaatataacagtcactgcagactatttcattgaccttttaccgtccttcattatctatgagttaatttgtgttgttatattgtatagATTGGGAAAGGTTCAAGAAGAGATGTTACTATATTGCCTACACTTGTTGTGAACAACCGGCAATATCGAG

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|48574969|gb|CO036168.1|CO036168
EST:     CAGATGCCGATACTGATAATCCTGTTTTAAAAGAAGAGCAAGATGCCCAA                         ATTGGAAAGGGATCGCGAGGTGATGTTACCATATTGCCTACTCTTGTTGTC
genomic: CAGATGCCGATACTGATAATCCTGTTTTAAAAGAAGAGCAAGATGCCCAAgtattgtact ... gttttggtagATTGGAAAGGGATCGCGAGGTGATGTTACCATATTGCCTACTCTTGTTGTC
EST: gi|208200101|gb|GD996030.1|GD996030
EST:     CAAATGCCGATACTGATAATCCTGTTTTAAAAGAAGAGCAAGATGCCCAA                         ATTGGAAAGGGATCGCGAGGTGATGTTACCATATTGCCTACTCTTGTTGTC
genomic: CAGATGCCGATACTGATAATCCTGTTTTAAAAGAAGAGCAAGATGCCCAAgtattgtact ... gttttggtagATTGGAAAGGGATCGCGAGGTGATGTTACCATATTGCCTACTCTTGTTGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attcattgcatcagtgcagtaatatatagatgtttaacaatattagttttggtagATTGGAAAGGGATCGCGAGGTGATGTTACCATATTGCCTACTCTTGTTGTCAATAATCGACAATATCGAG
                               gtttaac  putative branch site (score: 3)
                   taatatatagatgttt  TA-rich tract