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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTAAGTCGAGAATGATGGGTGACTCAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGATgtatgtctaagttccacacttctactcatgttatgattctgggttcaaatttagatgagcagaaaatatacagacatgaccttccattgaaaatatctga...

Basic information

species Zea mays
transcript GRMZM2G000510_T02
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G000510_T02 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os11g48040.1 (Oryza sativa), 5'ss of exon 7
GTTAAGTCGAGAATGATGGGTGACTCAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGATgtatgtctaagttccacacttctactcatgttatgatt--ctgggttcaaatttagatgagcagaaaatatacagacatgaccttcca-ttgaaaatatctga
|| ||||| ||||||||||||||||| ||||||| ||| ||| | |||||||| ||||||||||| ||||||||||||||    | | ||  ||  ||  |   ||||  | |   | | |      |||  | |     | ||||    | |||     |   |   | | |   ||
GTCAAGTCAAGAATGATGGGTGACTCGGCCTACACAAGTACTATTGATTGTTTCGTGAAGACGCTGAAGAATGATgtatgctctactcccttacc-ctgtttgagttactagtaaatagatcttgtgtta--tcattcttacatatttgtagatgtttaccaggtctcatacaataga
















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|32804642|gb|CD956878.1|CD956878
EST:     CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGAT                         GGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
genomic: CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGATgtatgtctaa ... tactctgtagGGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
EST: gi|71332543|gb|DR803241.1|DR803241
EST:     CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGAT                         GGCCCTTTGGCATTTTACAAAGGCTTCCTGCAAAACTTTGCAAGACTGGGA
genomic: CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGATgtatgtctaa ... tactctgtagGGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
EST: gi|78109061|gb|DV527478.1|DV527478
EST:     CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGAT                         GGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
genomic: CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGATgtatgtctaa ... tactctgtagGGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
EST: gi|211234202|gb|FK951230.1|FK951230
EST:     CAGCCTACAAAAGCACTCTCGATTGTTTKGTGAAGACGCTAAAGAATGAT                         GGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
genomic: CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGATgtatgtctaa ... tactctgtagGGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
EST: gi|31349105|gb|CD433462.1|CD433462
EST:     CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAACGAT                         GGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
genomic: CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGATgtatgtctaa ... tactctgtagGGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
EST: gi|213173050|gb|FM188194.1|FM188194
EST:     CGATTGTTTTGTGAAGACGCT-AAGAATGAT                         GGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
genomic: CGATTGTTTTGTGAAGACGCTAAAGAATGATgtatgtctaa ... tactctgtagGGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
EST: gi|71332542|gb|DR803240.1|DR803240
EST:     CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGAT                         GGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
genomic: CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGATgtatgtctaa ... tactctgtagGGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
EST: gi|76292714|gb|DV032282.1|DV032282
EST:     CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGAT                         GGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
genomic: CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGATgtatgtctaa ... tactctgtagGGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
EST: gi|71758598|gb|DR956535.1|DR956535
EST:     CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGAT                         GGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
genomic: CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGATgtatgtctaa ... tactctgtagGGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
EST: gi|211425383|gb|FL463585.1|FL463585
EST:     CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGAT                         GGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
genomic: CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGATgtatgtctaa ... tactctgtagGGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
EST: gi|110210924|gb|EC892821.1|EC892821
EST:     CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGAT                         GGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
genomic: CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGATgtatgtctaa ... tactctgtagGGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
EST: gi|12045964|gb|BF727999.1|BF727999
EST:     CAGCCTACAAAAGCACTCTCGATTGGTTTGGGAAGACGCTAAAGAATGAT                         GGCCCTTTGGCATTTTACAA
genomic: CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGATgtatgtctaa ... tactctgtagGGCCCTTTGGCATTTTACAA
EST: gi|6501109|gb|AW202482.1|AW202482
EST:     CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGAT                         GGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
genomic: CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGATgtatgtctaa ... tactctgtagGGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
EST: gi|76291091|gb|DV030659.1|DV030659
EST:     CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAACGAT                         GGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTTGCA-GACTGGG
genomic: CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGATgtatgtctaa ... tactctgtagGGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTT-GCAAGACTGGG
EST: gi|71758726|gb|DR956663.1|DR956663
EST:     CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGAT                         GGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
genomic: CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGATgtatgtctaa ... tactctgtagGGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
EST: gi|4886008|gb|AI677128.1|AI677128
EST:     CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGAT                         GGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
genomic: CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGATgtatgtctaa ... tactctgtagGGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
EST: gi|211234201|gb|FK951229.1|FK951229
EST:     CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACTCTAAAGAATGAT                         GGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
genomic: CAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGATgtatgtctaa ... tactctgtagGGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
EST: gi|69351358|gb|DR452107.1|DR452107
EST:     CACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGAT                         GGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA
genomic: CACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGATgtatgtctaa ... tactctgtagGGCCCTTTGGCATTTTACAAAGGCTTCCTGCCAAACTTTGCAAGACTGGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTAAGTCGAGAATGATGGGTGACTCAGCCTACAAAAGCACTCTCGATTGTTTTGTGAAGACGCTAAAGAATGATgtatgtctaagttccacacttctactcatgttatgattctgggttcaaatttagatgagcagaaaatatacagacatgaccttccattgaaaatatctga

- - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA