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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggatcaacaatgctgattacgggttgtcttttggaaaattgaattattggccactgatttcagttaaaacctgatgctttaaaaacttctactcttaacaaatgcagTTCACCATGTCGGGGCACACTTCACTGCGAAGCAATGCAATCATGATCACAAGCACCATCACTGTTGTGCTTTTCAGCACAGTG

Basic information

species Glycine max
transcript GLYMA10G30020.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G30020.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os07g47100.2 (Oryza sativa), 3'ss of exon 12
gtaggatcaacaatgct-gattacgggtt---gtcttttggaaaattgaattattggccac----tgatttcagttaaaacctg-------atgctttaaaaacttctact----cttaac-----------aaatgcagTTCACCATGTCGGGGCACACTTCACTGCGAAGCAATGCAATCATGATCACAAGCACCATCACTGTTGTGCTTTTCAGCACAGTG
||  |  |  || |||  || ||  | ||     | | || | |  || |||  |   | |    ||   | | |||   || |       |||  |||    ||||| ||    ||||||           || ||||||| || |  || || || |||   ||||   |||||||||| |||||||| |||||||||||||| || ||||| |||||  ||
gtcagtccgtcagtgcaagactattgcttcacaccatctgtatatctgtatttctcttctcatcttgccattaattagtcccaggagaagtatgtcttagtttcttctccttaagcttaactgtctcgttgcaattgcagTTTACAAGATCTGGCCATACTCAGCTGCACGGCAATGCAATAATGATCACCAGCACCATCACTGTCGTTCTTTTTAGCACTATG

upper sequence: GLYMA10G30020.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os07g47100.3 (Oryza sativa), 3'ss of exon 13
gtaggatcaacaatgct-gattacgggtt---gtcttttggaaaattgaattattggccac----tgatttcagttaaaacctg-------atgctttaaaaacttctact----cttaac-----------aaatgcagTTCACCATGTCGGGGCACACTTCACTGCGAAGCAATGCAATCATGATCACAAGCACCATCACTGTTGTGCTTTTCAGCACAGTG----------------
||  |  |  || |||  || ||  | ||     | | || | |  || |||  |   | |    ||   | | |||   || |       |||  |||    ||||| ||    ||||||           || ||||||| || |  || || || |||   ||||   |||||||||| |||||||| |||||||||||||| || ||||| |||||  ||                
gtcagtccgtcagtgcaagactattgcttcacaccatctgtatatctgtatttctcttctcatcttgccattaattagtcccaggagaagtatgtcttagtttcttctccttaagcttaactgtctcgttgcaattgcagTTTACAAGATCTGGCCATACTCAGCTGCACGGCAATGCAATAATGATCACCAGCACCATCACTGTCGTTCTTTTTAGCACTATGGTGAGTCATCTTACTG

upper sequence: GLYMA10G30020.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os11g42790.1 (Oryza sativa), 3'ss of exon 11
gtaggatcaacaatgctgattacgggttgtcttttggaaaattgaattattggccactgatttcagttaaaacctgatgctttaaaaacttctactcttaacaaatgcagTTCACCATGTCGGGGCACACTTCACTGCGAAGCAATGCAATCATGATCACAAGCACCATCACTGTTGTGCTTTTCAGCACAGTG
        |||     |||    || || | |||       ||    ||||  | | || |   | || |  | |  || | | |||  |   ||| |  |||  |||||||||| | ||| || ||||||  ||| |  || ||||| ||||||||||| || || ||||||||||| |||||||||||  ||
-------taacttgtttgaggctggattttttttgtttgctttcgtgtattaactattgttcgtaattcatgctt--tgatctgaaacttgtcact-tcgacacttgcagTTCACAAGGTCAGGCCACACTCAACTCCCTAGTAATGCTATCATGATCACTAGTACAATCACTGTTGTTCTTTTCAGCACGATG

upper sequence: GLYMA10G30020.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G037342_T02 (Zea mays), 3'ss of exon 13
gtaggatcaacaatgctgattacgggttgtcttttggaaaattgaattattggccactgatttcagttaaaacctgatgctttaaaaacttctactcttaacaaatgcagTTCACCATGTCGGGGCACACTTCACTGCGAAGCAATGCAATCATGATCACAAGCACCATCACTGTTGTGCTTTTCAGCACAGTG
    |   |   ||||     |  |  || | |    |    || | | ||      | ||||  ||       | |||||||  |    |||  | ||      | |||||||| |  || || || |||  ||  |  |||||||| ||||||||||||||||| ||||  ||||| |||||||||||| | 
---tgcctatatatgcct-caatagactggcctcaaaaggtctggaatgttaagtgttcattt--gtctgttgttcatgcttttga----tctgattttctattctccagTTCACAAGATCAGGCCATACTCAACAACCTAGCAATGCTATCATGATCACAAGCACAATCAGCGTTGTTCTTTTCAGCACAATT

upper sequence: GLYMA10G30020.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv14s0030g00710.t01 (Vitis vinifera), 3'ss of exon 12
gtaggatcaacaatgctgattacgggttgtcttttggaaaattgaattattggccactgatttca---gttaaaacctgatgctttaaaaacttctactctta--acaaatgcagTTCACCATGTCGGGGCACACTTCACTGCGAAGCAATGCAATCATGATCACAAGCACCATCACTGTTGTGCTTTTCAGCACAGTG
                 |||   | | |   ||   | || || ||         |  | ||| |    || |||    | | | |||   ||| |  | |||  | | ||||||||  | | |||||| || |||  | |||||   |||||||||||||| || |||||||| || ||||| |||||||||||||||
---------------tggatggtgagatagattcatgcaatttcaaaagggcaggagaggttttattaatttaaaaaaaaggatataattccttatggtgttacaatatatgcagTTTGCAAGGTCGGGACATACTCAATTGCGATCAAATGCAATCATGATTACCAGCACCATAACAGTTGTTCTTTTCAGCACAGTG

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|15288061|gb|BI471952.1|BI471952
EST:     GGGCTGGCCTTATGAGAGGTGCTGTTTCCATCGCACTTGCATATAATCAG                         TTCACCATGTCGGGGCACACTTCACTGCGAAGCAATGCAATCATGATCACA
genomic: GGGCTGGCCTTATGAGAGGTGCTGTTTCCATCGCACTTGCATATAATCAGgtaggatcaa ... acaaatgcagTTCACCATGTCGGGGCACACTTCACTGCGAAGCAATGCAATCATGATCACA
EST: gi|151398797|gb|EV268668.1|EV268668
EST:     GGGCTGGCCTTATGAGAGGTGCTGTTTCCATCGCACTTGCATATAATCAG                         TTCACCATGTCGGGGCACACTTCACTGCGAAGCAATGCAATCATGATCACA
genomic: GGGCTGGCCTTATGAGAGGTGCTGTTTCCATCGCACTTGCATATAATCAGgtaggatcaa ... acaaatgcagTTCACCATGTCGGGGCACACTTCACTGCGAAGCAATGCAATCATGATCACA
EST: gi|22541751|gb|BU091594.1|BU091594
EST:     GGGCTGGCCTTATGAGAGGTGCTGTTTCCATCGCACTTGCATATAATCAG                         TTCACCATGTCGGGGCACACTTCACTGCGAAGCAATGCAATCATGATCACA
genomic: GGGCTGGCCTTATGAGAGGTGCTGTTTCCATCGCACTTGCATATAATCAGgtaggatcaa ... acaaatgcagTTCACCATGTCGGGGCACACTTCACTGCGAAGCAATGCAATCATGATCACA
EST: gi|12496314|gb|BG047002.1|BG047002
EST:     GGGCTGGCCTTATGAGAGGTGCTGTTTCCATCGCACTTGCATATAATCAG                         TTCACCATGTCGGGGCACACTTCACTGCGAAGCAATGCAATCATGATCACA
genomic: GGGCTGGCCTTATGAGAGGTGCTGTTTCCATCGCACTTGCATATAATCAGgtaggatcaa ... acaaatgcagTTCACCATGTCGGGGCACACTTCACTGCGAAGCAATGCAATCATGATCACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgatttcagttaaaacctgatgctttaaaaacttctactcttaacaaatgcagTTCACCATGTCGGGGCACACTTCACTGCGAAGCAATGCAATCATGATCACAAGCACCATCACTGTTGTGCTTTTCAGCACAGTG
                                        tcttaac  putative branch site (score: 2)
                         tttaaaaacttcta  TA-rich tract