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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATTGGTGATGTAACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAGgtatattagtaaattctaaaaaggctctgctcagatgccttagcttcacttttgttataattttggcttattccctgactatcttttttttattttgagctaatacatatgttgttttcatgtttctgaaatctgaag

Basic information

species Zea mays
transcript GRMZM5G840928_T04
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G840928_T01 (Zea mays), 5'ss of exon 7
lower sequence: Vv05s0020g02800.t01 (Vitis vinifera), 5'ss of exon 7
AATTGGTGATGTAACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAGgtatattagtaaattctaaaaaggctctgctcagatgccttagcttcacttttgttataattttggcttattccctgactatcttttttttattttgagctaatacatatgttgttttcatgtttctgaaatctgaag
 ||||||| |||||| ||  | | |||||||||| ||||| |||||||||| ||| |||||||||||  | || ||  |  ||      | || |  ||   | | |   |||||| ||   |||||   |  |     | |   ||     | ||||    |   |                                 
GATTGGTGGTGTAACTATCCTACGGAAAGGAAAATCTGATCTCATCAGTGATGGTGAAACAGgtatagaattagatg-tgtaattatgtttcttatgtg---tggttcagcttttgctagttttttgaaatggtgatgaattggtttgcagatgttttct-ttggca---------------------------------
















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|71763117|gb|DR961054.1|DR961054
EST:     AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAG                         TTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG
genomic: AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAGgtatattagt ... aaatctgaagTTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG
EST: gi|76282803|gb|DV022371.1|DV022371
EST:     AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAG                         TTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG
genomic: AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAGgtatattagt ... aaatctgaagTTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG
EST: gi|76016157|gb|DT943327.1|DT943327
EST:     GAAAGGAAAA-CTGA-GTCATCAG-GACGGTAAAACA-                         TTACACAAGTGAGTACTTTT-GTTCCCCAAGACGGTGTGGTGGTCAAGG-G
genomic: GAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAGgtatattagt ... aaatctgaagTTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG
EST: gi|60400995|gb|DN233802.1|DN233802
EST:     AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAG                         TTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG
genomic: AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAGgtatattagt ... aaatctgaagTTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG
EST: gi|76016158|gb|DT943328.1|DT943328
EST:     AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAG                         TTACACAAGTGAGTACTTTTGGGTCCCCAAGACGGTGTGGTGGTCAAGGTG
genomic: AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAGgtatattagt ... aaatctgaagTTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG
EST: gi|211044162|gb|FL460073.1|FL460073
EST:     AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAG                         TTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG
genomic: AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAGgtatattagt ... aaatctgaagTTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG
EST: gi|94474415|gb|EB703373.1|EB703373
EST:     AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAG                         TTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG
genomic: AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAGgtatattagt ... aaatctgaagTTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG
EST: gi|71448822|gb|DR829872.1|DR829872
EST:     AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAG                         TTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTG
genomic: AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAGgtatattagt ... aaatctgaagTTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTG
EST: gi|71766336|gb|DR964273.1|DR964273
EST:     AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAG                         TTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG
genomic: AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAGgtatattagt ... aaatctgaagTTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG
EST: gi|76011914|gb|DT939084.1|DT939084
EST:     AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAG                         TTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG
genomic: AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAGgtatattagt ... aaatctgaagTTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG
EST: gi|76020591|gb|DT947761.1|DT947761
EST:     AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAG                         TTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAGGGTG
genomic: AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAGgtatattagt ... aaatctgaagTTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG
EST: gi|60345505|gb|DN212478.1|DN212478
EST:     AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAG                         TTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG
genomic: AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAGgtatattagt ... aaatctgaagTTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG
EST: gi|76282804|gb|DV022372.1|DV022372
EST:     AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAG                         TTACACAAGTGAGTACTTTTGGTTCCCCCAGACGGTGTGGTGGTCAAGGTG
genomic: AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAGgtatattagt ... aaatctgaagTTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG
EST: gi|78122651|gb|DV541035.1|DV541035
EST:     AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAG                         TTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG
genomic: AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAGgtatattagt ... aaatctgaagTTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG
EST: gi|60400210|gb|DN233017.1|DN233017
EST:     AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAG                         TTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG
genomic: AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAGgtatattagt ... aaatctgaagTTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG
EST: gi|78122650|gb|DV541034.1|DV541034
EST:     AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAG                         TTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG
genomic: AACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAGgtatattagt ... aaatctgaagTTACACAAGTGAGTACTTTTGGTTCCCCAAGACGGTGTGGTGGTCAAGGTG

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATTGGTGATGTAACAATAATGCAGAAAGGAAAAGCTGATGTCATCAGTGACGGTAAAACAGgtatattagtaaattctaaaaaggctctgctcagatgccttagcttcacttttgttataattttggcttattccctgactatcttttttttattttgagctaatacatatgttgttttcatgtttctgaaatctgaag

- - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - GCTGAT