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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcttgttcggttataccccaatccatagggattgagggggtttcaatccccaataagtcaaaatcccctccaatccgtatcaatccccttcaatccatatggattggaaataaccgaacaagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCATTGTCTGGGCAGGCTAACTTACTATTTGTACTATAAGCAAGCTGTTGCTT

Basic information

species Zea mays
transcript GRMZM2G027282_T01
intron # 9
splice site 3'
intron type U2

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|67022292|gb|CO451041.1|CO451041
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGG                         GGGGAAACGCCC-GTACTTGGTGATCATTNCAGTGGTTTGTGACACTGNCA
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATT-CAGTTGTTTGTGACACTGCCA
EST: gi|211381567|gb|FL475794.1|FL475794
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAANN                         NNNNNAACGCCCGGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|20802484|gb|BQ293534.1|BQ293534
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCATGAATTACTACGCGTAAGG                         GGGG-AACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|22552518|gb|BU102357.1|BU102357
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGG                         GGGG-AACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|32851366|gb|CD991047.1|CD991047
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGG                         GGGG-AACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|32801652|gb|CD953888.1|CD953888
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGG                         GGGG-AACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGATACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|37400681|gb|CF637697.1|CF637697
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAANN                         NNNNNAACGCCCGGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|5917528|gb|AW054331.1|AW054331
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGG                         GGGG-AACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|31357355|gb|CD441712.1|CD441712
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAANN                         NNNNNAACGCCCGGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|31356703|gb|CD441060.1|CD441060
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAANN                         NNNNNAACGCCCGGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|166599739|gb|EG168346.1|EG168346
EST:     GCTTGAATTACTACGCGTAA-G                         GGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: GCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|78024534|gb|DV492921.1|DV492921
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGG                         GGGG-AACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|20336842|gb|BQ172472.1|BQ172472
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGG                         GGGG-AACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|5456459|gb|AI834149.1|AI834149
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGG                         GGGG-AACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|78543926|gb|DV621424.1|DV621424
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGG                         GGGG-AACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|78544181|gb|DV621679.1|DV621679
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGG                         GGGG-AACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|6827952|gb|AW331595.1|AW331595
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGG                         GGGG-AACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|6563754|gb|AW231286.1|AW231286
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGG                         GGGG-AACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|32851382|gb|CD991063.1|CD991063
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGG                         NGGG-AACGCCCCGTACTTGGTGATCATTCAGTTGGTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|33097544|gb|CF057504.1|CF057504
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGG                         GGGG-AACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|5124040|gb|AI745881.1|AI745881
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGG                         GGGG-AACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|7242251|gb|AW574424.1|AW574424
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGG                         GGGG-AACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|4885759|gb|AI676879.1|AI676879
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGG                         GGGG-AACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|6563657|gb|AW231384.1|AW231384
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGG                         GGGG-AACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|37401285|gb|CF638005.1|CF638005
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAANN                         NNNNNAACGCCCGGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|32801813|gb|CD954049.1|CD954049
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGG                         GGGG-AACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|83278765|gb|DV942773.1|DV942773
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGG                         GGGG-AACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|6564179|gb|AW231801.1|AW231801
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGG                         GGGG-AACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|32943591|gb|CF048410.1|CF048410
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGG                         GGGG-AACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|60338510|gb|DN205483.1|DN205483
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGG                         GGGG-AACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|20208457|gb|BQ134546.1|BQ134546
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGG                         GGGG-AACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGAC-CTGCCAT
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCAT
EST: gi|166444452|gb|EG138581.1|EG138581
EST:     ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGG                         GGGG-AACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGAC
genomic: ATCCAAGTGCAGGCAAAGAAGAAGTCCAGCTTGAATTACTACGCGTAAGGgcttgttcgg ... aagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccgtatcaatccccttcaatccatatggattggaaataaccgaacaagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCATTGTCTGGGCAGGCTAACTTACTATTTGTACTATAAGCAAGCTGTTGCTT
                                 aaataac  putative branch site (score: 2)
                                 aaataa  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcttgttcggttataccccaatccatagggattgagggggtttcaatccccaataagtcaaaatcccctccaatccgtatcaatccccttcaatccatatggattggaaataaccgaacaagccctaagGGGGGAACGCCCCGTACTTGGTGATCATTCAGTTGTTTGTGACACTGCCATTGTCTGGGCAGGCTAACTTACTATTTGTACTATAAGCAAGCTGTTGCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT