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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgtattagggcttggtagtcggtataatgtttccatgatattttttacaattatatttttttgggtttttttataatttctataaaagaatcttactagtacattatttgcagACTGCCAAGGAATATTGTGAACAGCTCGGTGTAGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCCTATGAAGGACTATACTTTTTCTTGGGTGCAT

Basic information

species Glycine max
transcript GLYMA02G39360.1
intron # 19
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 19
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 19
gtactgtattagggcttggtagtcggtataatgtttccatgatattttttacaattatatttttttgggtttttttataatttctataaaagaatcttactagtacattatttgcagACTGCCAAGGAATATTGTGAACAGCTCGGTGTAGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCCTATGAAGGACTATACTTTTTCTTGGGTGCAT
                            || | || | | | |   ||| ||  |    ||||| |   || |   ||   ||||    |  |     ||  ||    ||| ||||| ||||||| ||||| | ||| ||||| || || ||||| ||||| ||||| |||||||||||||| || || || || || |||||||||||||| || |
---------------------------gtatttttgctacgtttagtttgaccttcccttttttgtcacttctcacattggttctgattattatcgaaacatgtgtcatatctgcagGCTGCCAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATAAAACTGTTTGAGCAATTCAAATCTTACGAGGGCCTTTACTTTTTCTTGGGAGCTT

upper sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 19
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 19
gtactgtattagggcttggtagtcggtataatgttt-ccatgatattttttacaattatatttttttgggtttttttataatttctataaaagaatcttactagtacattatttgcagACTGCCAAGGAATATTGTGAACAGCTCGGTGTAGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCCTATGAAGGACTATACTTTTTCTTGGGTGCAT
                               | ||| | |   |   ||| ||  |    ||||| |   || |   ||   ||||    |  |     ||  ||    ||| ||||| ||||||| ||||| | ||| ||||| || || ||||| ||||| ||||| |||||||||||||| || || || || || |||||||||||||| || |
------------------------------gtatttgctacatttagtttaaccttcccttttttgtcacttctcacattggttctgattattatcgaaacatgtgtcatatctgcagGCTGCCAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATAAAACTGTTTGAGCAATTCAAATCTTACGAGGGCCTTTACTTTTTCTTGGGAGCTT

upper sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 19
lower sequence: GRMZM2G477336_T01 (Zea mays), 3'ss of exon 6
gtactgtattagggcttggtagtcggtataatgtttccatgatattttttacaattatatttttttgggtttttttataatttctataaaagaatcttactagtacattatttgcagACTGCCAAGGAATATTGTGAACAGCTCGGTGTAGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCCTATGAAGGACTATACTTTTTCTTGGGTGCAT
  | | | ||| | |        |  | ||      |  ||  |||| ||    || |   || ||||      || |||||  | | |||   ||||    |      || ||||| | || || ||||| | ||| ||||| || || ||||| ||||| ||| | |||||||||||||| || ||||| || || ||||||||||||||  | |
tcagtttcttatgccccctccccctctgtaccaacccattggcatttatt----ttcttccttcttgg------ttctaattattgtgaaa---tcttggggga----catatgcagGCCGCGAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATCAAATTATTTGAGCAATTCAAATCTTATGAGGGCCTTTACTTTTTCTTGGGATCCT

upper sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 19
lower sequence: GRMZM2G352837_T02 (Zea mays), 3'ss of exon 6
gtactgtattagggcttggtagtcggtataatgtttccatgatattttttacaattatatttttttgggtttttttataatttctataaaagaatcttactagtacattatttgcagACTGCCAAGGAATATTGTGAACAGCTCGGTGTAGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCCTATGAAGGACTATACTTTTTCTTGGGTGCAT
     |||||   | |  ||  |   |||     | ||    | |      | |||    ||| ||   ||  ||  |  ||   || |  |     |  | |   |  || ||||| | || || ||||| | ||| ||||| || || ||||| ||||| ||| | |||||||||||||| || ||||| || || ||||||||||||||  | |
-----gtattcctgttcagt--ttcttatgcccctccccctctgtaccaacccattggcatttattttcttccttcttggttctaattattgggaaatcttgggggac-atatgcagGCCGCGAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATCAAATTATTTGAGCAATTCAAATCTTATGAGGGCCTTTACTTTTTCTTGGGATCCT

upper sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 19
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 17
gtactgtattagggcttggtagtcggtataatgtttccatga-tattttt-tacaattatatttttttgggtttttttataatttctataaaaga-atcttactagtacattatttgcagACTGCCAAGGAATATTGTGAACAGCTCGGTGTAGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCCTATGAAGGACTATACTTTTTCTTGGGTGCAT
                  |||     |     ||| |  | |  |||||| | | |   || |  |||   |    |  | |  | |||||      ||  ||  ||     || || || |||| || ||||||| |||||| || || || ||||| ||||| ||| | ||||| |||||||| || ||||| || || ||||||||||||||  | |
------------------gtaaatattgctccgttcctgtaaacatttttgttccaccctactgctttccctcccctgttcaagtatataacttttgtcaaacctgtggcacatctgtagGCTGCGAAAGAATATTCTGAACAACTAGGAGTTGATGCTTGCATAAAATTATTTGAACAATTCAAATCTTATGAGGGCCTCTACTTTTTCTTGGGATCCT

upper sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 19
lower sequence: GRMZM2G591258_T01 (Zea mays), 3'ss of exon 10
gtactgtattagggcttggtagtcggtataatgtttccatgatattttttacaattatatttttttgggtttttttataatttctataaaagaatcttactagtacattatttgcagACTGCCAAGGAATATTGTGAACAGCTCGGTGTAGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCCTATGAAGGACTATACTTTTTCTTGGGTGCAT
     |||||   | |  ||      |      |  || |  | |      | |||    ||| ||   ||  ||  || ||   || |  |     |  | |   |  || ||||| | || || ||||| | ||| ||||| || || ||||| ||||| ||| | |||||||||||||| || ||||| || || ||||||||||||||  | |
-----gtattcctgttcagtttcttatgccccctccccctc-tgtaccaacccattggcatttattttcttccttcttagttctaattattgtgaaatcttgggggac-atatgcagGCCGCGAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATCAAATTATTTGAGCAATTCAAATCTTATGAGGGCCTTTACTTTTTCTTGGGATCCT

upper sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 19
lower sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 19
gtactgtattagggcttggtagtcggtataatgtttccatgatattttttacaattatatttttttgggtttttttataatttctataaaagaat--cttactagtacattatttgcagACTGCCAAGGAATATTGTGAACAGCTCGGTGTAGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCCTATGAAGGACTATACTTTTTCTTGGGTGCAT
                                  |   ||  | |||| ||    ||| |  || | | || ||  | | ||  || ||||   |  || ||||   |||| | |||||||||||||||| |||| ||||||| | ||||| || ||||| || ||||| |||||||| |||||||| ||||||||| ||||||||||||||||  |||
---------------------------------gtaaaatagtgttttgta----tatgtgattattgattattccaca-ttcataaaaaattgtggctcactaagtcatt-tgtgcagACTGCCAAGGAGTATTCTGAACAGTTGGGTGTTGAGGCATGTATAAAACTGTTTGAGCAGTTCAAGTCTTATGAAGGATTATACTTTTTCTTGGGGTCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgggtttttttataatttctataaaagaatcttactagtacattatttgcagACTGCCAAGGAATATTGTGAACAGCTCGGTGTAGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCCTATGAAGGACTATACTTTTTCTTGGGTGCAT
                               atcttac  putative branch site (score: 3)
       tttttttataatttct  TA-rich tract