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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCTTCAAATGTCTGTCCAGGATGCAAACATGTCCAGTGACACTGATATGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtattattcttaaactaatggcatacaggtgcattttagctgcagcttcaataatttattggccctttttatgtgtaaaataacag

Basic information

species Zea mays
transcript GRMZM2G147671_T02
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G147671_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os03g13970.2 (Oryza sativa), 5'ss of exon 8
CTCTTCAAATGTCTGTCCAGGATGCAAACATGTCCAGTGACACTGATATGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtattattcttaaactaatggcatacaggtgcattt-tagctgcagcttcaataatttattg--gccctttttatgtgtaaaataacag
|||||||||||||||||||||| |||  |  ||| ||| |  |||||||||| |||||||||||||||||| | |||||  |||| |||||||| || ||| |||||  | |  ||| |||| ||| |   |  ||   ||  | ||      || | | | |   ||  ||||      | ||||   ||
CTCTTCAAATGTCTGTCCAGGACGCAGGCGGGTCTAGTCAGTCTGATATGAGCAAGGTGTTTGAAGACAGATCATTTGTTACATCCATCCTTAACTCTgtaagtatttgtttagaaccaatgacatgctaatctatagatattttcattgcgtatgactgactcttgctgttttcccccttcaaattgtag
















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|211525286|gb|FK977009.1|FK977009
EST:     TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCG                         CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
genomic: TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtatta ... aaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
EST: gi|15053742|gb|BI359287.1|BI359287
EST:     TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCG                         CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
genomic: TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtatta ... aaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
EST: gi|15053743|gb|BI359288.1|BI359288
EST:     TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCG                         CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
genomic: TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtatta ... aaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
EST: gi|32937218|gb|CF042037.1|CF042037
EST:     TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCG                         CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
genomic: TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtatta ... aaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
EST: gi|28984428|gb|BQ539033.2|BQ539033
EST:     TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCG                         CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
genomic: TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtatta ... aaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
EST: gi|9733091|gb|BE511843.1|BE511843
EST:     TGAGTAAGGTGTTTGAAGACAGAACATTTGTGTCATCTATCCTTAATTCG                         CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCN
genomic: TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtatta ... aaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATC-
EST: gi|5770174|gb|AI973348.1|AI973348
EST:     ATCCTTAATTCG                         CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
genomic: ATCCTTAATTCGgtatgtatta ... aaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
EST: gi|37382952|gb|CF628448.1|CF628448
EST:     GAAGACAGAACATTTGTGTCATCTATCCTTAATTCG                         CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
genomic: GAAGACAGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtatta ... aaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
EST: gi|15053278|gb|BI358823.1|BI358823
EST:     AAGACAGAACG-TTGTGTCATCTATCCTTAATTCG                         CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
genomic: AAGACAGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtatta ... aaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
EST: gi|60354976|gb|DN221949.1|DN221949
EST:     TGAGTAAGGTGTTTGAAGACAGAACATTTGTGTCATCTATCCTTAATTCG                         CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
genomic: TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtatta ... aaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
EST: gi|4609687|gb|AI600526.1|AI600526
EST:     TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCG                         CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
genomic: TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtatta ... aaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTCTTCAAATGTCTGTCCAGGATGCAAACATGTCCAGTGACACTGATATGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtattattcttaaactaatggcatacaggtgcattttagctgcagcttcaataatttattggccctttttatgtgtaaaataacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA