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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttgagagttcctttttcttgtggtttcttggagcatgcttattggtgtacttgtctgatgttgacttcctattcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA

Basic information

species Zea mays
transcript GRMZM2G152958_T02
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os05g06460.1 (Oryza sativa), 3'ss of exon 10
gtac-ttgagagttcctttttcttgtggtttcttggagcatgcttat--------tggtgtacttgtctgatgttgacttcctattcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
|||| |||  | |   |||   ||     |||||  | |   | |||        | || || ||| |||||    | |||||||  |||||||||||| |||||||||||||| | ||| |||||||||||||||||||||||||| || || || ||||| |||||||||||||||||||||||  | |||||
gtacattgcaaatctgtttagatttcatcttcttctatcgctcctatgttgcttatcgtatagttgcctgataagtaattcctatgaaaatgtagTTGTCGAACAAATCTCTGGGAGGGACCACATCCTAAATCATTTAAGCATCCCCGCTGCTTGCTTCACTCATCCAGAGATTAGTATGGTTGGGCTTACAGA

upper sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA09G04270.1 (Glycine max), 3'ss of exon 5
----gtacttgagagttcctttttcttgtggtttcttggagcatgcttattggtgtacttgtctgatgttgac-ttcctattcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
    | |      | |    ||||  |     |  |||   |||  ||  |  |  | |    | |||   |  ||  | ||  ||   ||| ||||||||| || ||||||  |||||| | || |||||||||||||| ||||| || |||||||| ||||| || || || |||||||||||||| ||
gtaagaagcaagtaatgtaattttgctactaatatttgagtcat--ttgct--tccattcacttaatgaaaatattgttgttggaa---agTGGTTGAACAAGTCACTGGAAGAGATCACGTGCTCAATCATTTAAGCATACCAGCTGCTTGTTTCACTCATCCTGAAATCAGCATGGTTGGATTGACTGA

upper sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA17G03560.1 (Glycine max), 3'ss of exon 10
gtacttgagagttcctttttcttgtggtttcttggagcatgcttat-tggtgtacttgtctgatgttgacttcctattcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
|||  ||  |  |  | |  |||     |||    |    | ||||   |     |  | |||||   |  |  | |  ||    ||| ||||||||| || ||||||| |||||| | || |||||||||||||||||||| || |||||||| ||||| ||  |||| ||||||||||| |||||
gtaagtggtaactgatgtaactt-----ttccaaaatttagtttatgcagcaatatcatttgatgaaaaaat--tgtctaa---cagTGGTTGAACAAGTCACTGGAAAAGATCACGTGCTCAATCATTTAAGCATCCCAGCTGCTTGTTTCACTCATCCTGAACTTAGCATGGTTGGATTAACAGA

upper sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA15G15310.1 (Glycine max), 3'ss of exon 10
----gtacttgagagttcctttttcttgtggtttcttggagcatgcttattggtgtacttgtctgatgttgacttcctattcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
    | |   |  | |    ||||  |     || |||   |||  ||  |  |  | ||   | |||   |  |  | ||  |   |||| ||||||||| |  | ||||  |||||| | || |||||||||||||| ||||| || |||||||| ||||| || || || |||||||||||||||||
gtaagaagcaggtaatgtaattttgctactaatttttgagtcat--ttgct--tccatttacttaatgaaaagat--tgttgga---tagTGGTTGAACAAGTGACCGGAAGAGATCACGTGCTCAATCATTTAAGCATACCAGCTGCTTGTTTCACTCATCCTGAAATCAGCATGGTTGGATTGACAGA

upper sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA07G37050.1 (Glycine max), 3'ss of exon 10
gtacttgagagttcctttttcttgtggtttcttggagcatgcttattggtgtact--tgtctgatgttgacttcctattcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
|||  ||  |  || | |   ||    |  |    |   |  || ||| || | |    | |||||   |  |  | |  ||    ||| ||||||||| || ||||||  |||| | | || |||||||||||||||||||| || |||||||| ||||| || || || |||||||||||||||||
gtaagtggtaactcatgtaattt----tcccaaaaattttagtttttgctgcaatatcatttgatgaaaaaat--tgtctaa---cagTGGTTGAACAAGTCACTGGAAGAGATCTCGTGCTCAATCATTTAAGCATCCCAGCTGCTTGTTTCACTCATCCTGAAATCAGCATGGTTGGATTGACAGA

upper sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 10
lower sequence: AT4G16155.1 (Arabidopsis thaliana), 3'ss of exon 10
--------------------------gtacttgagagttcctttttcttgtggtttcttggagcatgcttattggtgta---cttgtctgatgttgacttcctattcaaatg---tagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
                            |  ||    || |||||  || |  |||  |  |         || |  |     || |   |   |      ||| |    |    |||| || || ||| || | || |  |||||  | || |||||| | ||||||||||| || ||||| || ||||| || || |||||||| |||||||||||
gtaaatggttttatcaatatttcactccaaatgcatctttcttttgtttttccttttctacactgaatacgttagattgacctttattaaactctatgcatctacttgtgttggctagTGGTGGAGCAAGTCACAGGTAGAGATCATGTGCTTAATCATCTTAGCATCCCAGCTGCTTGTTTTACTCATCCTGAAATAAGTATGGTGGGATTGACAGA

upper sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 10
lower sequence: Vv14s0060g01330.t01 (Vitis vinifera), 3'ss of exon 10
----gtac-ttgagagtt-cctttttcttgtggtttcttggagcatgcttattggt----gtacttgtctgatgt-tgacttcctattca--aatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
     ||| |||   ||| ||  | |||      | | |||    ||    |  ||     ||  |   |||    ||||||    ||     |  ||||||||||||||||   |||||||||  |  | || |||||||| |||||||||||||| |||||||||||||| ||||| |||||||| ||  |||||||
gtaattaccttgtttgttgccactctctctctactacatggtttttgtcattcagttttaatatctacttgaaacctgacttttcttttgtcgacatagTTGTTGAACAAATTAGTGGAAAGGACAATGTGCTGAATCATTTGAGCATCCCAGCAGCGTGTTTCACCCATCCTGAGATCAGTATGGTGGGGCTGACAGA

upper sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 10
lower sequence: Vv05s0077g01210.t01 (Vitis vinifera), 3'ss of exon 10
----gtacttgagagttcct-ttttcttgtggtttcttggagcatgcttattggtgtacttgtctgatgttgacttcctattcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
    ||  |    |  || | ||||  |||  |  |||  |  |||||  ||     |  | ||   | |||  |  || ||   ||| ||||||||| ||| |  | |||||||||||  | || |||||||| |||||||||||||| |||||||| |||||||| || ||||||||||||||||| ||
gttagtggtaactacctcatattttgctgttttacctttaaaaatgctacttaaaccatct-tcattttttgcttggctcttgtgatgcagTTGTTGAGCAAGTTACCGGAAAGGATCATGTGCTCAATCATTTGAGCATCCCAGCAGCTTGTTTCACTCATCCAGAAATCAGTATGGTTGGATTGACTGA

upper sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 10
lower sequence: EFJ06739 (Selaginella moellendorffii), 3'ss of exon 10
gtacttgagagttcctttttcttgtggtttcttggagcatgcttattggtgtacttgtctgatgttgacttcctattcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
                       ||  | ||  |    |    | |||    |  || | |   | |  |  || |     || |||| ||||   | |  ||||||| ||  |  ||||||| ||||||||||| ||||| || || ||||| ||||||||||| || |||  |||  |||| ||
-----------------------gtaatctcgagagagacatgttttgtgtgatgtgaccgtgatcgtgtctcttt-----tgcagTTATTGAGAGACTTGCTGGAAACGACAATGTCCTAAACCATTTAAGCATACCAGCCGCTTGCTTCACACATCCAGAGATAAGCATGACTGGGATGACTGA

upper sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 10
lower sequence: EFJ16882 (Selaginella moellendorffii), 3'ss of exon 10
gtacttgagagttcctttttcttgtggtttcttggagcatgcttattggtgtacttgtctgatgttgacttcctattcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
                       ||  | ||  |    |    | |||    |  || | |   | |  |  || |     || |||| ||||   | |  ||||||| ||  |  ||||||| ||||||||||| |||||||| || ||||| ||||||||||| || |||  |||  |||| ||
-----------------------gtaatctcgagagaaacatgttttgtatgatgtgaccgtgatcgtgtctcttt-----tgcagTTATTGAGAGACTTGCTGGAAACGACAATGTCCTAAACCATTTAAGCATACCAGCAGCTTGCTTCACACATCCAGAGATAAGCATGACTGGCATGACTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggagcatgcttattggtgtacttgtctgatgttgacttcctattcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
                               tgttgac  putative branch site (score: 3)
                                     cttcctattc  CT-rich tract
                                          tattcaaat  TA-rich tract