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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcgcccgcctccgcccccactcctgctgcttctgctggattacattctgtggcatctccatctgatccctctctggattattcagGCTGGCCGGGAACCCGGTGTGCGAGCGCCTGCCCAACACGCCCTACTGCAGCGCGACGCAGCGGCCGCTGTCGGCGCCCTACTCGACGAGCCTGGTGAAG

Basic information

species Zea mays
transcript GRMZM2G023715_T01
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G023715_T02 (Zea mays), 3'ss of exon 14
lower sequence: LOC_Os03g21230.1 (Oryza sativa), 3'ss of exon 13
gtgagcgcccgcctccgcccccactcctgctgcttctgctggattacattctgtggcatctccat-ctgatccctctctggattattcagGCTGGCCGGGAACCCGGTGTGCGAGCGCCTGCCCAACACGCCCTACTGCAGCGCGACGCAGCGGCCGCTGTCGGCGCCCTACTCGACGAGCCTGGTGAAG
|||||  |      ||  ||   ||||   || | | | |||  | |   |||  || ||||| | |  | | | || |  ||   |||||||||||||||||||||||||||| || ||||| |||||||  ||||||| || |||||||||  |   | ||||||| |||||||||||||| || |||
gtgagtccattgaaccaaccat-ctccgaatgatgccg-tggccttcg--ctgctgcctctccttgcctaactccctgtacatcgatcagGCTGGCCGGGAACCCGGTGTGCGACCGGCTGCCGAACACGCAGTACTGCAACGTGACGCAGCGCGCCGCGGCGGCGCCGTACTCGACGAGCCTTGTCAAG
















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|148933999|gb|EC878000.2|EC878000
EST:     AACGAGTTCGCCTCCCTCACGGTGACCTCCAGCTACAACGGCACACTTGC                         GCTGGCCGGGAACCCGGTGTGCGAGCGCCTGCCCAACACGCCCTACTGCAG
genomic: AACGAGTTCGCCTCCCTCACGGTGACCTCCAGCTACAACGGCACACTTGCgtgagcgccc ... gattattcagGCTGGCCGGGAACCCGGTGTGCGAGCGCCTGCCCAACACGCCCTACTGCAG
EST: gi|76291830|gb|DV031398.1|DV031398
EST:     AACGAGTTCGCCTCCCTCACGGTGACCTCCAGCTACAACGGCACACTTGC                         GCTGGCCGGGAACCCGGTGTGCGAGCGCCTGCCCAACACGCCCTACTGCAG
genomic: AACGAGTTCGCCTCCCTCACGGTGACCTCCAGCTACAACGGCACACTTGCgtgagcgccc ... gattattcagGCTGGCCGGGAACCCGGTGTGCGAGCGCCTGCCCAACACGCCCTACTGCAG
EST: gi|71768120|gb|DR966057.1|DR966057
EST:     AACGAGTTCGCCTCCCTCACGGTGACCTCCAGCTACAACGGCACACTTGC                         GCTGGCCGGGAACCCGGTGTGCGAGCGCCTGCCCAACACGCCCTACTGCAG
genomic: AACGAGTTCGCCTCCCTCACGGTGACCTCCAGCTACAACGGCACACTTGCgtgagcgccc ... gattattcagGCTGGCCGGGAACCCGGTGTGCGAGCGCCTGCCCAACACGCCCTACTGCAG
EST: gi|148981983|gb|EE028043.2|EE028043
EST:     AACGAGTTCGCCTCCCTCACGGTGACCTCCAGCTACAACGGCACACTTGC                         GCTGGCCGGGAACCCGGTGTGCGAGCGCCTGCCCAACACGCCCTACTGCAG
genomic: AACGAGTTCGCCTCCCTCACGGTGACCTCCAGCTACAACGGCACACTTGCgtgagcgccc ... gattattcagGCTGGCCGGGAACCCGGTGTGCGAGCGCCTGCCCAACACGCCCTACTGCAG
EST: gi|148989785|gb|EE031798.2|EE031798
EST:     AACGAGTTCGCCTCCCTCACGGTGACCTCCAGCTACAACGGCACACTTGC                         GCTGGCCGGGAACCCGGTGTGCGAGCGCCTGCCCAACACGCCCTACTGCAG
genomic: AACGAGTTCGCCTCCCTCACGGTGACCTCCAGCTACAACGGCACACTTGCgtgagcgccc ... gattattcagGCTGGCCGGGAACCCGGTGTGCGAGCGCCTGCCCAACACGCCCTACTGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgctggattacattctgtggcatctccatctgatccctctctggattattcagGCTGGCCGGGAACCCGGTGTGCGAGCGCCTGCCCAACACGCCCTACTGCAGCGCGACGCAGCGGCCGCTGTCGGCGCCCTACTCGACGAGCCTGGTGAAG
                             atctgat  putative branch site (score: 4)
        attacatt  TA-rich tract