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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtatatcggagatctagacagtcagtcctggtgtcacgtattatccttgacaactgtttaaggtacaacacattatgcactcaaactgcagGATGTGCCATCTGCCACACGTACCCTTGACCTTGCTTCTGCGCTCGAGGTCGGATCAGGCGGAGGTCTGTGTGCTTTAAGCGATAGCGGGTCAGGCACGC

Basic information

species Zea mays
transcript GRMZM2G003509_T02
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G003509_T02 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os12g41860.1 (Oryza sativa), 3'ss of exon 14
gtgagtatatcggagatctagacagtcagtcctggtgtcacgtattatccttgacaactgtttaaggtacaacacattatgcactcaaac-tgcagGATGTGCCATCTGCCACACGTACCCTTGACCTTGCTTCTGCGCTCGAGGTCGGATCAGGCGGAGGTCTGTGTGCTTTAAGCGATAGCGGGTCAGGCACGC-
       |||    | || | |   | | ||| |  | |  || ||  || ||    ||    ||   ||    | |||||||||||||| ||||||||| ||||||||| ||||| || || |||||||| || || || ||||| ||| |||| |||| |  | |||||| |   || |||   |    || |  
------gtatgactggtccataatcttattccagaggccttgtctttcccatgttggctcaccaattaac----cgttatgcactcaaacctgcagGATGGGCCATCTGCAACACGCACGCTCGACCTTGCATCCGCCCTTGAGGTTGGACCAGGTGGAGCTTCGCGTGCTTCAGTTGA-AGCATCTGGCACATGTA
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|61119215|gb|DN560176.1|DN560176
EST:     CACCGTTGCTACCCTCTGGCTTCCGTGTGATACCGCTTGATGCTAAGACG                         GATGTGCCATCTGCCACACGTACCCTTGACCTTGCTTCTGCG
genomic: CACCGTTGCTACCCTCTGGCTTCCGTGTGATACCGCTTGATGCTAAGACGgtgagtatat ... caaactgcagGATGTGCCATCTGCCACACGTACCCTTGACCTTGCTTCTGCG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgtattatccttgacaactgtttaaggtacaacacattatgcactcaaactgcagGATGTGCCATCTGCCACACGTACCCTTGACCTTGCTTCTGCGCTCGAGGTCGGATCAGGCGGAGGTCTGTGTGCTTTAAGCGATAGCGGGTCAGGCACGC
        ccttgac  putative branch site (score: 4)
                  tgtttaa  TA-rich tract