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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcctttaacaaataacatggagattggtagtcgattatttctgctgcatatcttgctagccattttcttaattattgcctcatagcctgtttgtgtgcagGGGGATAAAAATATAATTAAATTTGATGGTGATCATAATTCTCCAAGACCTCAATCATATTATGATTCAGTTTCTATATTCTTCTACAAATCTTTGCATC

Basic information

species Zea mays
transcript GRMZM2G081642_T03
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G081642_T04 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os02g10440.1 (Oryza sativa), 3'ss of exon 8
--------------------------------------tcctttaacaaataacatggagattggtagtcgattatttctg-ctgcatatcttgctagccattttcttaattattgcctcatagcctgtttgt-gtgcagGGGGATAAAAATATAATTAAATTTGATGGTGATCATAATTCTCCAAGACCTCAATCATATTATGATTCAGTTTCTATATTCTTCTACAAATCTTTGCATC
                                         |  || |||||| |   | || | || | || | || ||| || | |        |  |||| |  |   | |    | | | | ||||| | || ||||||||||||| |||||| |||||||| |||||||| || || |||||||||||||||||||||||||||||||| || |||||||| ||  |||||||||
gtaatgcataatgtagtttgttttattaatgccactcaaaatcaaataaataatacataaatcgctaattgactgttcctggcttcctgctgaagaatacattattatttgtttaaaattaaatcatgtttattgtacagGGGGATAAAAGTATAATAAAATTTGAGGGTGATCACAACTCCCCAAGACCTCAATCATATTATGATTCAGTTTCAATGTTCTTCTATAATACTTTGCATC

upper sequence: GRMZM2G081642_T04 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA09G02050.1 (Glycine max), 3'ss of exon 9
---tccttt--aacaaataacatggagattggtagtcgattatttctgctgcatatcttgctagccattttcttaattattgcctcatagcctgtttgtgtgcagGGGGATAAAAATATAATTAAATTTGATGGTGATCATAATTCTCCAAGACCTCAATCATATTATGATTCAGTTTCTATATTCTTCTACAAATCTTTGCATC
   | ||||  ||| |  ||| |   | |    |  | |       |  |||   |||  || | |||   |  |||   |  ||  |   || |   | || |||| ||||||||||| || ||||||||||||||||| || ||  |  |||| || |  | |||||||||| |||| || |||||||||||     | |  |
gtattctttcaaaccatcaacctaatgttcttaaagcaacatgcagttttgc---tctctcttgacataaacaaaatatctaact--tgatctctaaatctgtagGGAGATAAAAATATCATAAAATTTGATGGTGATCACAACTCCTCTCGACCACAGTTCTTTTATGATTCAATTTCCATTTTCTTCTACAATGTGCTCCGCC

upper sequence: GRMZM2G081642_T04 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA17G00770.1 (Glycine max), 3'ss of exon 9
tcctttaacaaataacatggagattggtagtcgattatttctgctgcatatcttgctagccattttcttaattattgcctcatagcctgtt------tgtgtgcagGGGGATAAAAATATAATTAAATTTGATGGTGATCATAATTCTCCAAGACCTCAATCATATTATGATTCAGTTTCTATATTCTTCTACAAATCTTTGCATC
     ||  || | |     |  ||||     ||   ||| |   ||| |||| ||   || ||||   | |  | |||  |   ||| ||      | | || |||| ||||||||| | || |||||||| |||||||| || ||  |  | || ||||  | |||||||||||||||||| |||||||||||     | || |
----gtattaatttattccaaatttggagaatgaaattttttaaagca-atct-gc--accctttttccattggtagccaaaatacctattcttttttttttgtagGGTGATAAAAATGTCATAAAATTTGACGGTGATCACAACTCGTCTCGGCCACAATTCTTTTATGATTCAGTTTCTATTTTCTTCTACAATGTCCTTCACC

upper sequence: GRMZM2G081642_T04 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA15G12950.1 (Glycine max), 3'ss of exon 7
----tcctttaacaaataacatggagattggtagtcgattatttctgctgcatatcttgctagccattttcttaattattgcctcatagcctgtttgtgtgcagGGGGATAAAAATATAATTAAATTTGATGGTGATCATAATTCTCCAAGACCTCAATCATATTATGATTCAGTTTCTATATTCTTCTACAAATCTTTGCATC
    || || ||   || |     |  ||  ||    | |||  | | |    | ||  || | |||   |  |||   |  ||  |   || |   | || |||| ||||||||||| || ||||||||||||||||| || ||  |  |||| || |  | |||| ||||| |||| || |||||||||||     | || |
gtattctttcaaaccatcaatctaatgttcttaaagcaatatg-cagttttgca-ctctcttgacataaacaaaatatctaact--tgatctctaaatttgtagGGAGATAAAAATATCATAAAATTTGATGGTGATCACAACTCCTCTCGACCACAGTTCTTTTATAATTCAATTTCCATTTTCTTCTACAATGTCCTCCACC

upper sequence: GRMZM2G081642_T04 (Zea mays), 3'ss of exon 8
lower sequence: Vv00s0475g00050.t01 (Vitis vinifera), 3'ss of exon 2
tcctttaacaaataaca-tggagat-tggtagtcgattatttctgctgcatatcttgctagccattttcttaattattgcctcatagcctgt-ttgtgtgcagGGGGATAAAAATATAATTAAATTTGATGGTGATCATAATTCTCCAAGACCTCAATCATATTATGATTCAGTTTCTATATTCTTCTACAAATCTTTGCATC
     ||  |  | |   |||||   | || ||    | ||   ||     ||     | | | | ||  | |  |||    ||||   | | || ||||||||| ||||| ||||| || || |||||||||||||| || ||| |  |||| || |  ||||||||||||||||| || |||||||||||   | | ||||
----gtattatgtcattctggaggccttgtggttagattttaaagcgaggcattgcaattggcgtctttatgaaaattttaccatattgtttattatgtgcagGGAGATAAGAATATTATAAAGTTTGATGGTGATCACAACTCTTCTCGACCACAGTTTTATTATGATTCAGTTTCCATCTTCTTCTACAATGTTCTACATC

upper sequence: GRMZM2G081642_T04 (Zea mays), 3'ss of exon 8
lower sequence: PP1S118_125V6.1 (Physcomitrella patens), 3'ss of exon 8
tcctttaacaaataacatggagattggtagtcgattattt-ctgctgcatat---cttgctagccattttcttaattattgcctcatagcctgtttgtgtgcagGGGGATAAAAATATAATTAAATTTGATGGTGATCATAATTCTCCAAGACCTCAATCATATTATGATTCAGTTTCTATATTCTTCTACAAATCTTTGCATC
   |  ||    | ||   |||   ||||   ||| | || | | ||  | |   || | ||   ||   | |  | | |||    |        ||  ||||||| ||||| |||||||| || |||||||||||||||||||| ||||||||||| |  || ||||||||  |  | || ||||| || ||   |||||  |
--ttagaaaggctcacgatgagtagggtatgagatcacttacaggtgtgtttaagctcgttaagtatggccatt-tgaatgcaatgtgatgaacgtg-atgcagGGTGATAAGAATATAATCAAGTTTGATGGTGATCATAATTCCCCAAGACCTCAGTTTTACTATGATTCCATCACGATCTTCTTTTATAATGTTTTGCGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcatatcttgctagccattttcttaattattgcctcatagcctgtttgtgtgcagGGGGATAAAAATATAATTAAATTTGATGGTGATCATAATTCTCCAAGACCTCAATCATATTATGATTCAGTTTCTATATTCTTCTACAAATCTTTGCATC
                    tcttaat  putative branch site (score: 3)
                                        cctgttt  putative PPT
                attttcttaattatt  TA-rich tract