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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAAATCATTTGGTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAGgtatttacaccatgcaattggtcatctgctcatcgctctcttttggtatcatgcaattctgcttgactgctacactaataaactgttgacttataatcacactatgtatgagatgactatttggggaaataaacaaaatacagtgcatcatcgttccctaagtgcatgtaagtagattttttcatgcttgcag

Basic information

species Zea mays
transcript GRMZM2G149272_T01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G149272_T02 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os02g42520.3 (Oryza sativa), 5'ss of exon 7
GGAAATCATTTGGTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAGgtatttacaccatgcaattggtcatctgctcatcgctctcttttggtatcatgcaattctgcttgactgctacactaataaactgttgac-ttataatcacactatgtatgagatgactatttggggaaataaacaaaatacagtgcatcatcgttccctaagtgcatgtaagtagattttttcatgcttgcag
||||| | ||||||||||| || |||||||| ||||| ||||||| |||||||||||| ||||||  | || ||||      |  |       |  |||      | | |   | ||||| |   | |   || ||   ||    |||||   ||    |  ||| |                                                                                         
GGAAAGCTTTTGGTGTCACAGATTTTATTAATCCAGAAGAATTGAATGAACCTGTTCAGCAGgtacat-catcatgtttgctgagaaaactgaactgctgatcactcgcagtttacaattttatctaa--actgcat--atttggtgttggtattccttttgcacaa-----------------------------------------------------------------------------------------
















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|71331902|gb|DR802836.1|DR802836
EST:     GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAG                         GTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
genomic: GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAGgtatttacac ... atgcttgcagGTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
EST: gi|211510916|gb|FL028116.1|FL028116
EST:     GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAG                         GTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
genomic: GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAGgtatttacac ... atgcttgcagGTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
EST: gi|60401092|gb|DN233899.1|DN233899
EST:     GAATTGAGTGAACCTGTTCAACAG                         GTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
genomic: GAATTGAGTGAACCTGTTCAACAGgtatttacac ... atgcttgcagGTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
EST: gi|14203856|gb|BG837533.1|BG837533
EST:     GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAG                         GTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
genomic: GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAGgtatttacac ... atgcttgcagGTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
EST: gi|71769715|gb|DR967652.1|DR967652
EST:     TGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTTCA-CAG                         GTAATCAAAAGGATTACTGA
genomic: TGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTT-CAACAGgtatttacac ... atgcttgcagGTAATCAAAAGGATTACTGA
EST: gi|78087855|gb|DV516248.1|DV516248
EST:     TGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTTCA-CAG                         GTAATCAAAAGGATTACTGA
genomic: TGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTT-CAACAGgtatttacac ... atgcttgcagGTAATCAAAAGGATTACTGA
EST: gi|6095609|gb|AW120276.1|AW120276
EST:     CAGATGAATTGAGTGAACCTGTTCAACAG                         GTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
genomic: CAGATGAATTGAGTGAACCTGTTCAACAGgtatttacac ... atgcttgcagGTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
EST: gi|29945503|gb|CB815672.1|CB815672
EST:     GTGTCCCGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAG                         GTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
genomic: GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAGgtatttacac ... atgcttgcagGTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
EST: gi|76921975|gb|DV168787.1|DV168787
EST:     TGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTTCA-CAG                         GTAATCAAAAGGATTACTGATGAAGGGGTGGATTACTCATTTGAAT
genomic: TGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTT-CAACAGgtatttacac ... atgcttgcagGTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAAT
EST: gi|5296121|gb|AI782996.1|AI782996
EST:     GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAG                         GTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
genomic: GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAGgtatttacac ... atgcttgcagGTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
EST: gi|89246725|gb|DY618512.1|DY618512
EST:     GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAG                         GTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
genomic: GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAGgtatttacac ... atgcttgcagGTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
EST: gi|5847100|gb|AW000179.1|AW000179
EST:     CCTGTTCAACAG                         GTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
genomic: CCTGTTCAACAGgtatttacac ... atgcttgcagGTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
EST: gi|6194720|gb|AW146824.1|AW146824
EST:     GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAG                         GTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
genomic: GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAGgtatttacac ... atgcttgcagGTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
EST: gi|5895803|gb|AW037049.1|AW037049
EST:     GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAG                         GTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
genomic: GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAGgtatttacac ... atgcttgcagGTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
EST: gi|5895869|gb|AW037115.1|AW037115
EST:     GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAG                         GTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
genomic: GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAGgtatttacac ... atgcttgcagGTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
EST: gi|71769714|gb|DR967651.1|DR967651
EST:     CTGTTCAACAG                         GTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
genomic: CTGTTCAACAGgtatttacac ... atgcttgcagGTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
EST: gi|211510917|gb|FL028117.1|FL028117
EST:     GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAG                         GTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
genomic: GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAGgtatttacac ... atgcttgcagGTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
EST: gi|91873431|gb|EB403388.1|EB403388
EST:     GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAG                         GTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
genomic: GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAGgtatttacac ... atgcttgcagGTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
EST: gi|5901133|gb|AW042233.1|AW042233
EST:     CGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAG                         GTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
genomic: CGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAGgtatttacac ... atgcttgcagGTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
EST: gi|148963165|gb|EE014137.2|EE014137
EST:     GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAG                         GTAATCAAAAGGATTACTGATGGAGGGGT
genomic: GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAGgtatttacac ... atgcttgcagGTAATCAAAAGGATTACTGATGGAGGGGT
EST: gi|76016068|gb|DT943238.1|DT943238
EST:     TGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTTCA-CAG                         GTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATT
genomic: TGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTT-CAACAGgtatttacac ... atgcttgcagGTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATT
EST: gi|76016067|gb|DT943237.1|DT943237
EST:     GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAG                         GTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTAGAATGTGTG
genomic: GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAGgtatttacac ... atgcttgcagGTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
EST: gi|148958260|gb|EC904476.2|EC904476
EST:     GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAG                         GTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
genomic: GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAGgtatttacac ... atgcttgcagGTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
EST: gi|71325642|gb|DR799508.1|DR799508
EST:     GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAG                         GTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
genomic: GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAGgtatttacac ... atgcttgcagGTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
EST: gi|6020665|gb|AW065698.1|AW065698
EST:     GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAG                         GTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG
genomic: GTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAGgtatttacac ... atgcttgcagGTAATCAAAAGGATTACTGATGGAGGGGTGGATTACTCATTTGAATGTGTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGAAATCATTTGGTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAGgtatttacaccatgcaattggtcatctgctcatcgctctcttttggtatcatgcaattctgcttgactgctacactaataaactgttgacttataatcacactatgtatgagatgactatttggggaaataaacaaaatacagtgcatcatcgttccctaagtgcatgtaagtagattttttcatgcttgcag

- - - - - - - - - - - - - - - -  CAGATG