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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttgttaacttctttgttcaatcaacatttataatttattttcttttgatcactcatttaattattatggtctttcttagGAACACTTCCAAAAATATTATGATGCTGTAATGCCATACCTGAAGGCTATATTGGTTAATGCAACTGACAAATCTAACCGTATGCTTCGTGCTAAGTCCA

Basic information

species Glycine max
transcript GLYMA05G28950.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G28950.2 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os03g49420.2 (Oryza sativa), 3'ss of exon 3
gtattttgttaacttctttgttcaatcaacatttataatttattttcttttgatcactcatttaattattatggtctttcttagGAACACTTCCAAAAATATTATGATGCTGTAATGCCATACCTGAAGGCTATATTGGTTAATGCAACTGACAAATCTAACCGTATGCTTCGTGCTAAGTCCA
|||       || |  |||      | ||  |||       |   | | ||| |||    |||    ||  |  | ||||  |||||||||||||||||||||||||||| || |||||||| || ||| ||||| |  | ||||||||||||||||| ||  | ||| | || || || || |
gtacaagaggaaatatttt------tgaaggttttcgggccagcat-tcttgctcaaa-gttttgcaatcttattgtttc--agGAACACTTCCAAAAATATTATGATGCAGTCATGCCATATCTCAAGTCTATACTCATGAATGCAACTGACAAATCAAATAGAATGTTGCGGGCCAAATCGA

upper sequence: GLYMA05G28950.2 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os07g38760.1 (Oryza sativa), 3'ss of exon 4
------------------------------------------------------gtattttgttaacttctttgttcaatcaacatttataatttattttcttttgatcactcatttaattattatggtctttcttagGAACACTTCCAAAAATATTATGATGCTGTAATGCCATACCTGAAGGCTATATTGGTTAATGCAACTGACAAATCTAACCGTATGCTTCGTGCTAAGTCCA
                                                        |||   ||   | |||   |  ||    | | | | |||||  | || || | |   ||||   | |  | ||||| |  |||| |||||| ||||||| |||||||| || |||||||||||||| ||||| ||  | ||||||||||| || || ||  | ||||||||||| ||||| |
gtaatttgtccatgtataagttagcttaatttcttatagggggagggggacgcaacattaccttttatacttatcttgatggttaatgagagtttataatattgtgttaa---attttggtgtacttgtcttgc--agGAGCACTTCAAAAAATACTATGATGCAGTGATGCCATACCTGAAAGCTATTTTAATGAATGCAACTGATAAGTCCAATAGGATGCTTCGTGCCAAGTCTA

upper sequence: GLYMA05G28950.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G033619_T01 (Zea mays), 3'ss of exon 3
gtattttgttaacttctttgttcaatcaacatttataatttattttcttttgatcactcatttaattattatggtctttcttagGAACACTTCCAAAAATATTATGATGCTGTAATGCCATACCTGAAGGCTATATTGGTTAATGCAACTGACAAATCTAACCGTATGCTTCGTGCTAAGTCCA
|||  |    || | |   ||||||||    ||  |||  || |    |   || | |  ||| | | ||||    ||  | |||||||||||||||||||||||||||| |||||||||||||| ||||||||  |  | ||||||||||| ||||| ||| | ||| | ||||| || ||||
gtagatcaggaaataca--gttcaatccttcttgttaacatagtaatctaacataaat--tttcaatcttat----ttattcagGAACACTTCCAAAAATATTATGATGCAGTAATGCCATACCTCAAGGCTATTCTCATGAATGCAACTGATAAATCCAACAGAATGTTGCGTGCCAAATCCA

upper sequence: GLYMA05G28950.2 (Glycine max), 3'ss of exon 6
lower sequence: AT5G19820.1 (Arabidopsis thaliana), 3'ss of exon 4
gtattttgttaacttctttgttcaatcaac-atttataatttatttt-cttttgatcactcatttaattattatggtctttcttagGAACACTTCCAAAAATATTATGATGCTGTAATGCCATACCTGAAGGCTATATTGGTTAATGCAACTGACAAATCTAACCGTATGCTTCGTGCTAAGTCCA
||||||    |     | ||||  ||| |   |||    |  ||    || ||||||  | | |  |  || ||     ||  ||||||||||| ||||| || |||||| |||| ||||| || || ||  |||| ||| | |||||||||||||| ||||| || ||||||||||| || ||||
gtatttgtaaagaagttgtgttgcatctattgttttccctacatgcaactcttgatc--taagtctaacataatctaaatttgtagGAACACTTTCAAAAGTACTATGATACTGTCATGCCTTATCTCAAAACTATTTTGATGAATGCAACTGACAAGTCTAAGCGGATGCTTCGTGCCAAATCCA

upper sequence: GLYMA05G28950.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv06s0004g00500.t01 (Vitis vinifera), 3'ss of exon 4
gtattttgttaacttctttgttcaatcaacatttataatttattttcttttgatcactcatttaattattatggtctttcttagGAACACTTCCAAAAATATTATGATGCTGTAATGCCATACCTGAAGGCTATATTGGTTAATGCAACTGACAAATCTAACCGTATGCTTCGTGCTAAGTCCA
      | |||  |  |||    |||   | |  || ||   |||  | |  || |      |||   || ||    |   |||||||| ||||||||||| |||||||| || ||||| ||||| || || |||||| | ||||| |||||||| |||||||| ||||||||||| ||  |||
-----gtattatatattttaa--aatatgcttccattatggttttcttataaatgagcagcctaacacttttgagtatcaatagGAACATTTCCAAAAATACTATGATGCAGTTATGCCTTACCTAAAAGCAATATTGATGAATGCCACTGACAAGTCTAACCGCATGCTTCGTGCCAAAGCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catttataatttattttcttttgatcactcatttaattattatggtctttcttagGAACACTTCCAAAAATATTATGATGCTGTAATGCCATACCTGAAGGCTATATTGGTTAATGCAACTGACAAATCTAACCGTATGCTTCGTGCTAAGTCCA
                              atttaat  putative branch site (score: 4)
                                             tctttctt  putative PPT
     ataatttattttcttt  TA-rich tract