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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgctctgagatcattctcaaattttgttttgacttattggcttgaaaacattttctgacgcctctaaatttaattatcctatgttaattgtttaaaccagAGGGACAAGATTGATGAAGCTTTGCGCTTGGCAAATTTGTCAGCAGAAAAACCTCACTTCTCTCACTGTCTAGAGTGGCTTCTGTTTACAGTATTTGATG

Basic information

species Zea mays
transcript GRMZM2G052750_T01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G052750_T02 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os02g54500.1 (Oryza sativa), 3'ss of exon 11
-----tgctctgagatcattctcaaattttgttttgacttattggcttgaaaacattttctgacgcctctaaatttaattatcctatgttaattgtttaaaccagAGGGACAAGATTGATGAAGCTTTGCGCTTGGCAAATTTGTCAGCAGAAAAACCTCACTTCTCTCACTGTCTAGAGTGGCTTCTGTTTACAGTATTTGATG
     |  | || || ||||  | |    || |||| |  | |    ||  || | |   |    ||| |  || |  | || || |   |||| || ||||||||| |||||   ||| |||||| |||| |||||||| ||||| ||||| |||||||||||||||   ||| | || ||||| |||||||| ||||||||||
ttatgtattatg-gaccattaactatgcatggtttgccaaactcatatggcaataatcatt--tccctatgcatctc-tcattctgtaa-aatttttgaaaccagAGAGACAAACATGAAGAAGCTCTGCGTTTGGCAAACTTGTCTGCAGAGAAACCTCACTTCTCTAGATGTTTGGAATGGCTCCTGTTTACGGTATTTGATG

upper sequence: GRMZM2G052750_T02 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA09G39270.2 (Glycine max), 3'ss of exon 12
tgctctgagatcattctcaaattttgttttgacttattggcttgaaaacattttctgacgcctctaaatttaattatcctatgt------taattgtttaaaccagAGGGACAAGATTGATGAAGCTTTGCGCTTGGCAAATTTGTCAGCAGAAAAACCTCACTTCTCTCACTGTCTAGAGTGGCTTCTGTTTACAGTATTTGATG
       |  |  ||||   |  || |  | |||   |   | |||  | | ||||   |     ||   ||  | ||  || |      || |||| |   | |||||||||| ||||| ||||| ||  |  | ||| |  | ||||| || || || || || || || ||||||||||||||||| |||||||||||||| |
-----caaccttgttcttttaacttatcattactctcttaat-gaactcttgttctatagagaaaaaggatatctgtctgatttcccgtttatttgtgtctgctagAGGGACAAAATTGAGGAAGCCTTAAGGCTTGCAGAGCTATCAGCTGAGAAGCCCCATTTTTCACATTGTCTAGAGTGGCTTCTTTTTACAGTATTTGAAG

upper sequence: GRMZM2G052750_T02 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA18G47050.1 (Glycine max), 3'ss of exon 12
----tgctctgagatcattctcaaattttgttttga-cttattggcttgaaaacattttctgacgcctctaaatttaattatcctatgttaattgtttaaaccagAGGGACAAGATTGATGAAGCTTTGCGCTTGGCAAATTTGTCAGCAGAAAAACCTCACTTCTCTCACTGTCTAGAGTGGCTTCTGTTTACAGTATTTGATG
    | || | |  | ||  |     | |  |     ||| |||  | || || |      ||   || |    ||  ||  | | | || || || |  || |||||||||| ||||| ||||||||  |  ||||| |  | ||||| || || ||||| || || || ||||||||||||||||| |||||||||||||| |
cttgttcttttaacttatcatttctctctaatgaactcttgttgtatagagaaaaag----gatatctgtctgattctttcccatttatttat-gtgtctactagAGGGACAAAATTGAGGAAGCTTTAAGGCTGGCAGAGCTATCAGCTGAGAAGCCTCATTTTTCACATTGTCTAGAGTGGCTTCTTTTTACAGTATTTGAAG

upper sequence: GRMZM2G052750_T02 (Zea mays), 3'ss of exon 11
lower sequence: AT5G28350.1 (Arabidopsis thaliana), 3'ss of exon 12
----------------------------tgctctgagatcattctcaaattttgttttgacttattggcttg--aaaacattttctgacgcctctaaatttaattatcctatgttaattgtttaaaccagAGGGACAAGATTGATGAAGCTTTGCGCTTGGCAAATTTGTCAGCAGAAAAACCTCACTTCTCTCACTGTCTAGAGTGGCTTCTGTTTACAGTATTTGATG
                            |    |   || || |     || |   || | | |||          ||  |||| |     |||  ||| | ||| |  | |  | ||  |||  || |||| || || | ||| || || || | ||| ||| | || || ||||| ||||| |||||||| || ||||| ||||||||||| ||||| || |||||||
gtattgttggtcctggcttctcttttcttaagttagaatgatcccttctttcttcctttattcatttctccattgcaattttttttattctctcagaatcttattctgtttttctcatattttggac-agAGAGATAAAAATGAAGAGGCGTTACTCTTAGCACAATTATCGGCAGAGAAACCCCACTTCTCCCATTGTCTGGAGTGGCTTCTTTTTACTGTTTTTGATG

upper sequence: GRMZM2G052750_T02 (Zea mays), 3'ss of exon 11
lower sequence: AT3G61480.1 (Arabidopsis thaliana), 3'ss of exon 12
----------------------------tgctctgagatcattctcaaattttgttttgacttattgg--cttgaaaacattttctgacgcctctaaatttaattatcctatgttaattgtttaaaccagAGGGACAAGATTGATGAAGCTTTGCGCTTGGCAAATTTGTCAGCAGAAAAACCTCACTTCTCTCACTGTCTAGAGTGGCTTCTGTTTACAGTATTTGATG
                            |    |   || || |     || |   || | | |||    |||   ||  |||| |  |  |||  ||| | ||| |  | | |   || |||    ||||| || || | ||| || || || | ||| ||| | || || ||||| ||||| |||||||| || ||||| ||||||||||| ||||| || |||||||
gtattgttggtcctggcttctcttttcttaagttagaatgatcccttctttcttcctttattcatttctcctttgcaattttttttttc-tctcagaatcttattctgtt-tttctcttattttggacagAGAGATAAAAATGAAGAGGCGTTACTCTTAGCACAATTATCGGCAGAGAAACCCCACTTCTCCCATTGTCTGGAGTGGCTTCTTTTTACTGTTTTTGATG

upper sequence: GRMZM2G052750_T02 (Zea mays), 3'ss of exon 11
lower sequence: Vv15s0046g01890.t01 (Vitis vinifera), 3'ss of exon 12
tgctctgagatcattctcaaattttgttttgacttattggc-ttgaaaacattttctgacgcc-tctaaatttaattatcctatgttaa---ttgtttaaaccagAGGGACAAGATTGATGAAGCTTTGCGCTTGGCAAATTTGTCAGCAGAAAAACCTCACTTCTCTCACTGTCTAGAGTGGCTTCTGTTTACAGTATTTGATG
     ||   || | ||||| |||  | ||   |  | |    ||| |  |  ||||   ||  |   |  ||  | || || | |  |   |||| || |||||||||||||||  || ||||| || || |||||| | || |||||||| || ||||| || || || ||||| ||||||||||| ||||| ||||||||||
-----tgcattcgtactcaattttcatcttaggtagtagatgctgacagaaaattctattgctattctaggttcctaattctgtttctaattttgtatacaccagAGGGACAAGAGCGAGGAAGCATTACGTTTGGCACAATTATCAGCAGAGAAGCCTCATTTTTCCCATTGTCTGGAGTGGCTTCTTTTTACTGTATTTGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaacattttctgacgcctctaaatttaattatcctatgttaattgtttaaaccagAGGGACAAGATTGATGAAGCTTTGCGCTTGGCAAATTTGTCAGCAGAAAAACCTCACTTCTCTCACTGTCTAGAGTGGCTTCTGTTTACAGTATTTGATG
                 tctaaatttaattatc  TA-rich tract