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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cccaattcccagcactagacgcgcctatggtgatctggtcaaggtgtctgtctttctgtcagtctgacgacgagcttgtttatcatgtggcatcaatcagGTGTTCAACGAGATAAACAGCAGGGAGATGCAGAAGATCAACGTCTTCCGCGGCATGTTCGGCAACTGGATCTTCGTCGGAATCATAGCCGCGACGGTAG

Basic information

species Zea mays
transcript GRMZM2G104730_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G104730_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os12g04220.1 (Oryza sativa), 3'ss of exon 6
-cccaattcccagcactagacgcgcct----atggtgatc-tggtcaaggtgtctgtctttctgtcagtctgacgacgagcttgtttatcatgtggcatcaatcagGTGTTCAACGAGATAAACAGCAGGGAGATGCAGAAGATCAACGTCTTCCGCGGCATGTTCGGCAACTGGATCTTCGTCGGAATCATAGCCGCGACGGTAG
 |  || |   ||   ||        |    |     ||| || |   |      |  |||||     ||| | || ||  ||   |  ||  ||   |  | ||||| ||||| || ||||||||||| || |||||||||||||| || ||||| |||||  || |||| ||||||||| | | | ||||||| || || ||||
cctgaactgatagagttatcttttttttttaaaaaaaatcatgatttggcaaagggaatttct--tgttctaatgatgatgtt--ctggcaaatgttgt--accagGTATTCAATGAAATAAACAGCAGAGAAATGCAGAAGATCAATGTTTTCCGTGGCATCATCAGCAATTGGATCTTCATTGCAGTCATAGCAGCAACCGTAG

upper sequence: GRMZM2G104730_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os11g04460.1 (Oryza sativa), 3'ss of exon 6
cccaattcccagcactagacgcgcct-atggtgatctggtcaaggt---gtctgtctttctgtcagtctgacgacgagcttgtttatcatgtggcatcaatcagGTGTTCAACGAGATAAACAGCAGGGAGATGCAGAAGATCAACGTCTTCCGCGGCATGTTCGGCAACTGGATCTTCGTCGGAATCATAGCCGCGACGGTAG
|  || |   ||   ||        | |     |  |  ||| | |   |   |    | | |   ||| | || ||  ||   |  ||   |   |  | ||||| ||||| || ||||||||||| || |||||||||||||| || ||||| || ||  || |||| ||||||||| | | | ||||||| || || ||||
ctgaactgatagatatatcttttttttaaaaaaaaataatcatgatttggcaagggaatttcttgttctaatgatgatgtt--ctggcaaacgttgt--accagGTATTCAATGAAATAAACAGCAGAGAAATGCAGAAGATCAATGTTTTCCGTGGTATCATCAGCAATTGGATCTTCATTGCAGTCATAGCTGCAACCGTAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtctgtctttctgtcagtctgacgacgagcttgtttatcatgtggcatcaatcagGTGTTCAACGAGATAAACAGCAGGGAGATGCAGAAGATCAACGTCTTCCGCGGCATGTTCGGCAACTGGATCTTCGTCGGAATCATAGCCGCGACGGTAG
                gtctgac  putative branch site (score: 3)
                              ttgtttat  TA-rich tract