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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacacattctaccccctgctcattcttgtatttgtaatttcaattgaagctaacaaaaatattactatgtgattttttcagGTATATCTTGCATACAGCATATTCTGCAACTCTTGCATTAACAGATTGGAGTAGTGTTTTCTATTCCCTTATCTATACGTCAATTCCCACAGTGGTAGTT

Basic information

species Oryza sativa
transcript LOC_Os03g21680.3
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g21680.3 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G398288_T01 (Zea mays), 3'ss of exon 5
------gtacacattctaccccctgctcattcttgt--atttgtaatttcaattgaagctaa------caaaaatat----tactatgtgattttttcagGTATATCTTGCATACAGCATATTCTGCAACTCTTGCATTAACAGATTGGAGTAGTGTTTTCTATTCCCTTATCTATACGTCAATTCCCACAGTGGTAGTT
      |||    |||           |||    ||  | | ||||  |||  |  | ||          ||| | |    || |   | || | |  ||||||||| |  |||| || |||||||||||||| ||||||||||||||||| |||||||||||||||||||| || || ||| |||| || || ||||||
ctttcagtagttgttccctttgagatccatcagagtttactagtaaaatcacatatatcttgattttctgaaagtttggtttatttcctcatctgtgtagGTATATCCTATATACGGCTTATTCTGCAACTCTGGCATTAACAGATTGGAGCAGTGTTTTCTATTCCCTTATATACACATCAGTTCCAACGGTAGTAGTT

upper sequence: LOC_Os03g21680.3 (Oryza sativa), 3'ss of exon 6
lower sequence: GLYMA16G34610.1 (Glycine max), 3'ss of exon 5
------------gtacacattctaccccct--gctcattcttgtatttgtaatttcaattgaagctaacaaaaatattactatgtgattttttc----agGTATATCTTGCATACAGCATATTCTGCAACTCTTGCATTAACAGATTGGAGTAGTGTTTTCTATTCCCTTATCTATACGTCAATTCCCACAGTGGTAGTT
              |   ||   || |  |    | ||     || |||  |||| |    |   ||   |   || | || |||  |  ||      |||||||| ||    || || | |||| |||||  |||||||||||||||||||||||| || |||||  | || || || || || || ||  | || |||
caattcttgggctcagcgatagaactcatttgatttatataaatagttgagattttatgaaattttattcattctaatgctgtgtcttccttgtctgtagGTATATATTATGCACTGCTTTTTCTACAACTTCTGCATTAACAGATTGGAGTAGTGTATTTTATTCTGTGATATACACATCTATCCCTACTATCGTTGTT

upper sequence: LOC_Os03g21680.3 (Oryza sativa), 3'ss of exon 6
lower sequence: GLYMA18G44550.1 (Glycine max), 3'ss of exon 8
---------gtacacattctaccccctgctcattcttgtatttgt----aatttcaattgaagctaacaaaaatattactatgtgatttt-------ttcagGTATATCTTGCATACAGCATATTCTGCAACTCTTGCATTAACAGATTGGAGTAGTGTTTTCTATTCCCTTATCTATACGTCAATTCCCACAGTGGTAGTT
         || || |   |         ||||| |  || | ||      ||| |||   || ||   || ||  |  | |||  | ||       || ||||| || ||    || || | |||| |||||  ||| || ||||||||||||||||||||||||||  | || || || || || || ||  |  | |||
aaattatgggttcaaagattgaagttacttcattttaataatagttgaaggttttaat--gagatattgaacattctgatgtgttgtgttccttgtctttagGTACATATTATGCACGGCTTTTTCTACAACTTCTGCTTTGACAGATTGGAGTAGTGTTTTCTATTCTGTGATATACACATCTATACCTACTATTATTGTT

upper sequence: LOC_Os03g21680.3 (Oryza sativa), 3'ss of exon 6
lower sequence: Vv08s0058g01400.t01 (Vitis vinifera), 3'ss of exon 5
--gtacacattctaccccctgctcattcttgtatttgtaatttcaattgaagct--------aacaaaaatattactatgtgattttttc--------agGTATATCTTGCATACAGCATATTCTGCAACTCTTGCATTAACAGATTGGAGTAGTGTTTTCTATTCCCTTATCTATACGTCAATTCCCACAGTGGTAGTT
   |  |     |  |         |||  | | || | |   | |  | |||         || ||||||||||  |||   ||  ||         ||||||||  ||   ||||| | |||  |||||   ||||||||||||| ||| ||||| |||||||| ||||||||||| || || || ||  | || |||
cactgaattacttgtcatgcttcagttcaagaagttatcagacctaaagtagcctcttataaaaaaaaaatattaagatgcttttcctttgtatctgtagGTATATACTGTCCACAGCTTTTTCAACAACTTCGGCATTAACAGATTTGAGCAGTGTATTCTATTCACTTATCTATACCTCCATCCCTACCATTGTTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtatttgtaatttcaattgaagctaacaaaaatattactatgtgattttttcagGTATATCTTGCATACAGCATATTCTGCAACTCTTGCATTAACAGATTGGAGTAGTGTTTTCTATTCCCTTATCTATACGTCAATTCCCACAGTGGTAGTT
                     agctaac  putative branch site (score: 2)
                                              ttttttc  putative PPT
                        taacaaaaatattact  TA-rich tract