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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggctatcacttcagcttttcctatagttaagcccaggttttacaataacacataaaatgcagcaattattgactgccttagcactgacatgcaatgcagTCCTCGATGGTTGTTGAAGCAAGAAGTGTCGAAGATTGTCAAATCTATAAATAGGCAGTTGCGTGAGAAATCTATCAAGACAAAG

Basic information

species Glycine max
transcript GLYMA07G40230.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G40230.2 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os02g07120.1 (Oryza sativa), 3'ss of exon 11
----------------------------------------------------tggctatcacttcagcttttcctatagttaagcccaggt-tttacaataacacataaaatgcagcaattattga--ctgccttagcactgacat-gcaatgcagTCCTCGATGGTTGTTGAAGCAAGAAGTGTCGAAGATTGTCAAATCTATAAATAGGCAGTTGCGTGAGAAATCTATCAAGACAAAG
                                                    | ||      | ||| || |     |  ||     |  |  ||  | |    | ||  |||     |  | |||  |    || ||| |    | ||  | ||| ||| |||||||| |||| ||||||||  | ||| |||||||||| || ||||||||||||||||| ||||| ||||||||||||
gcaagtctattgtgctcttatgtgcatcattattttcaacttctccaagttatagcatcttatgcagtttattggtgaaatacttttacatgcttgaagttgatcctaccatgtttagagcactgagcccatgttggcaatccttttgcttttcagCCCTAGATGGTTGCTGAAACAAGAAGTACCTAAGGTTGTCAAATCCATCAATAGGCAGTTGCGTGAAAAATCAATCAAGACAAAG

upper sequence: GLYMA07G40230.2 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os02g07340.1 (Oryza sativa), 3'ss of exon 8
----------------------------------tggctatcacttcagcttttcctatagttaagcccaggt-tttacaataacacataaaatgcagcaattattga--ctgccttagcactgacat-gcaatgcagTCCTCGATGGTTGTTGAAGCAAGAAGTGTCGAAGATTGTCAAATCTATAAATAGGCAGTTGCGTGAGAAATCTATCAAGACAAAG
                                  | ||      | ||| || |     |  ||     |  |  ||  | |      ||  |||     |  | |||  ||   || ||| |    | ||  | ||| ||| |||||||| |||| ||||||||  | ||| |||||||||| || |||||||||||||                       
tatttgcatcattattttcaacttttccaagttatagcatcttatgcagtttattggtgaaatacttttacatgcttgaagttgattctaccatgtttagAGCACTGAGCCTATGTTGGCAATCCTTTTGCTTTTCAGCCCTAGATGGTTGCTGAAACAAGAAGTACCTAAGGTTGTCAAATCCATCAATAGGCAGTTGC-----------------------

upper sequence: GLYMA07G40230.2 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G168629_T03 (Zea mays), 3'ss of exon 11
----------------------------------------------------------------------------tggctatcacttc--agctt-ttcctatagttaagcccag-gttttacaataacacataaaatgcagcaattattgactgcct-------tagcactgacatgcaatgcagTCCTCGATGGTTGTTGAAGCAAGAAGTGTCGAAGATTGTCAAATCTATAAATAGGCAGTTGCGTGAGAAATCTATCAAGACAAAG
                                                                            | | ||| | |    | ||| ||  |   | || |   ||      | |    ||  || | ||||     | ||  ||| |        |    |||   |||  ||||| ||||| |||||| |||||||||| ||  | ||  ||||||| ||||| || |||||||| ||||| ||||| ||||||||||||
gtgaggttcatcgaactgcagttagaaaaactggtgccattattataacgtggtaatctggtctcatactgggcactagatatgaatgtgtatcttgtttttgctgctatgtttagcagaaaatatctgcatttagattgcacgttctgtttcctgtccccatgcatcattctgttttgctttgcagCCCTCGCTGGTTGCTGAAGCAAGAGGTCCCAAAAGTTGTCAAGTCTATCAACAGGCAGTTACGTGAAAAATCAATCAAGACAAAG

upper sequence: GLYMA07G40230.2 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G053644_T01 (Zea mays), 3'ss of exon 7
tggctatcacttcagcttttccta-tagttaagcccaggttttacaataacacataaaatg-cagcaattattgactgc---cttagcactgacatgcaatgcagTCCTCGATGGTTGTTGAAGCAAGAAGTGTCGAAGATTGTCAAATCTATAAATAGGCAGTTGCGTGAGAAATCTATCAAGACAAAG
    | |   |   ||| | | ||  ||  ||   | |  ||||  ||  ||  |    |  |||    |  || |  |   | |    |||   |||  | ||| ||||| |||||| |||||||||| ||  | ||  ||||||| ||||| || |||||||| ||||| ||||| ||||||||||||
----tgtttttgttgctatgcttagcagaaaaattctgcattta-gattgcatgttctgtctcagtgtctcctgtccccatgcatcattctgttttgcttttcagCCCTCGCTGGTTGCTGAAGCAAGAGGT-CCAAAAGTTGTCAAGTCTATCAACAGGCAGTTACGTGAAAAATCAATCAAGACAAAG

upper sequence: GLYMA07G40230.2 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G053644_T02 (Zea mays), 3'ss of exon 9
------------------------------------------------------------------------------------------tggct-atcacttcagcttttccta-tagttaagcccaggttttacaataacacataaaatg-cagcaattattgactgcct---tagcactgacatgcaatgcagTCCTCGATGGTTGTTGAAGCAAGAAGTGTCGAAGATTGTCAAATCTATAAATAGGCAGTTGCGTGAGAAATCTATCAAGACAAAG
                                                                                          |  ||  |   |   ||| | | ||  ||  ||   | |  ||||  ||  ||  |    |  |||    |  || |  | |   |    |||   |||  | ||| ||||| |||||| |||||||||| ||  | ||  ||||||| ||||| || |||||||| ||||| ||||| ||||||||||||
gtgaggttcatcgaactgcagttagaaaaactggtgccattattataacgtggtaatctggtctcatactgggcactagatatgaatgtatatcttgtttttgttgctatgcttagcagaaaaattctgcattta-gattgcatgttctgtctcagtgtctcctgtccccatgcatcattctgttttgcttttcagCCCTCGCTGGTTGCTGAAGCAAGAGGT-CCAAAAGTTGTCAAGTCTATCAACAGGCAGTTACGTGAAAAATCAATCAAGACAAAG

upper sequence: GLYMA07G40230.2 (Glycine max), 3'ss of exon 12
lower sequence: AT2G02560.1 (Arabidopsis thaliana), 3'ss of exon 11
tggctatcacttcagcttttcctatagttaagcccaggttttacaataacacataaaatgcagcaattattgactgcct-tagcactgacatgcaatgcagTCCTCGATGGTTGTTGAAGCAAGAAGTGTCGAAGATTGTCAAATCTATAAATAGGCAGTTGCGTGAGAAATCTATCAAGACAAAG
  || |  | |     |  |   |     |     | | | |   | |   |  |  |  |     | | | | |   | || |  ||   |   |||||||||   |||| |  ||||||||||||| || |||||||| ||||| |||||||||||  |||| || || ||| | |||||||||
--gcaaaaattctgagtcctttcacttcaatatggatggtctgtcacatttctgatgaaaccctgctaactaaatatgtatacctttggttt---atgcagTCCAAAATGGCTACTGAAGCAAGAAGTCTCAAAGATTGTGAAATCCATAAATAGGCAACTGCGCGAAAAGTCTGTTAAGACAAAG

upper sequence: GLYMA07G40230.2 (Glycine max), 3'ss of exon 12
lower sequence: Vv12s0035g01840.t01 (Vitis vinifera), 3'ss of exon 12
tggctatcacttcagcttt-tcctatagttaagcccaggttttacaataacacataaaatgcagcaattattgac--tgccttagcactgacatgcaatgcagTCCTCGATGGTTGTTGAAGCAAGAAGTGTCGAAGATTGTCAAATCTATAAATAGGCAGTTGCGTGAGAAATCTATCAAGACAAAG
  ||  |   || | | |  |  ||| ||  |    |   | | |  |  |  ||||| |  ||  ||   ||    ||||  |    |   ||   |||||||||  ||||||| ||||||||||||||| | || ||||| |||||||||||  | ||| |  | |||||| |||||||||| |||
--gccttgtttttatcataattatattgtctatattatactatgccttgtc-tataaattttagttatggatgctgatgccaaaatgtttgtattttatgcagTCCAAGATGGTTATTGAAGCAAGAAGTGCCAAAAATTGTTAAATCTATAAACCGACAGCTAAGAGAGAAAACTATCAAGACGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataacacataaaatgcagcaattattgactgccttagcactgacatgcaatgcagTCCTCGATGGTTGTTGAAGCAAGAAGTGTCGAAGATTGTCAAATCTATAAATAGGCAGTTGCGTGAGAAATCTATCAAGACAAAG
                                     cactgac  putative branch site (score: 2)
     acataaaat  TA-rich tract