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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagggcaggttctaatagtttagggtaaaaggcaaagccaacaacgtacgttcctaacgatcgatgatctcttcgtggaaacgaacagGGCACTCTGCTTCCCTTCCGTGGTCAACGCGAATGAGGATCGCCATTGGAGCCGCCAAAGGTTTGGCTTTCCTCCACGACGCTGCCAAACCCGTCATCTA

Basic information

species Zea mays
transcript GRMZM2G110968_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G110968_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os10g25550.1 (Oryza sativa), 3'ss of exon 2
-----------------gtagggcaggttct-aatagtttagggtaaaaggcaaagccaacaacgtacgttcctaacgatcgatgatctcttcgtggaaacgaacagGGCACTCTGCTTCCCTTCCGTGGTCAACGCGAATGAGGATCGCCATTGGAGCCGCCAAAGGTTTGGCTTTCCTCCACGACGCTGCCAAACCCGTCATCTA
                  |        || |  || | | |   | |   | | |   || || | | |  |  | |||| |      |     | |||||   ||| | ||||||| || || ||||||||||| ||  ||| ||||||||||||||| |||| ||||||||| |||||||| || |||||||| |||||||||||
tgccgccttttgctttcatcatctgatttgtcgatgggtcataattagttgtagatgaaataatgcatgaactgatcgattg------tgcaaattgaaactg-cagAGTACTCTGCGTCGCTGCCGTGGTCAACACGCTTGAAGATCGCCATTGGAGCGGCCAGAGGTTTGGCCTTCCTCCATGAAGCTGCCAAGCCCGTCATCTA
















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|76020783|gb|DT947953.1|DT947953
EST:     CGTGTACGAGTTCATGGCCAGGGGCAGCTTGGAGAAGCATCTCTTCAAAA                         GGCACTCTGCTTCCCTTCCGTGGTCAACGCGAATGAGGATCGCCATTGGAG
genomic: CGTGTACGAGTTCATGGCCAGGGGCAGCTTGGAGAAGCATCTCTTCAAAAgtagggcagg ... aaacgaacagGGCACTCTGCTTCCCTTCCGTGGTCAACGCGAATGAGGATCGCCATTGGAG
EST: gi|91049702|gb|EB160120.1|EB160120
EST:     CGTGTACGAGTTCATGGCCAGGGGCAGCTTGGAGAAGCATCTCTTCAAAA                         GGCACTCTGCTTCCCTTCCGTGGTCAACGCGAATGAGGATCGCCATTGGAG
genomic: CGTGTACGAGTTCATGGCCAGGGGCAGCTTGGAGAAGCATCTCTTCAAAAgtagggcagg ... aaacgaacagGGCACTCTGCTTCCCTTCCGTGGTCAACGCGAATGAGGATCGCCATTGGAG
EST: gi|78089533|gb|DV517907.1|DV517907
EST:     CGTGTACGAGTTCATGGCCAGGGGCAGCTTGGAGAAGCATCTCTTCAAAA                         GGCACTCTGCTTCCCTTCCGTGGTCAACGCGAATGAGGATCGCCATTGGAG
genomic: CGTGTACGAGTTCATGGCCAGGGGCAGCTTGGAGAAGCATCTCTTCAAAAgtagggcagg ... aaacgaacagGGCACTCTGCTTCCCTTCCGTGGTCAACGCGAATGAGGATCGCCATTGGAG
EST: gi|91054554|gb|EB164972.1|EB164972
EST:     CGTGTACGAGTTCATGGCCAGGGGCAGCTTGGAGAAGCATCTCTTCAAAA                         GGCACTCTGCTTCCCTTCCGTGGTCAACGCGAATGAGGATCGCCATTGGAG
genomic: CGTGTACGAGTTCATGGCCAGGGGCAGCTTGGAGAAGCATCTCTTCAAAAgtagggcagg ... aaacgaacagGGCACTCTGCTTCCCTTCCGTGGTCAACGCGAATGAGGATCGCCATTGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaagccaacaacgtacgttcctaacgatcgatgatctcttcgtggaaacgaacagGGCACTCTGCTTCCCTTCCGTGGTCAACGCGAATGAGGATCGCCATTGGAGCCGCCAAAGGTTTGGCTTTCCTCCACGACGCTGCCAAACCCGTCATCTA
                  tcctaac  putative branch site (score: 1)