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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTAAAATGTTAGGCCAGATTCTGATAACGAAACAAACTGGTCCAGAGGGAAAGATTGTGAGCAAGgttagaacttacttgaggccatcttttgcctttatatgtttctgtttgaactttgaaccgtgattggcttcatgacacatttgctattggtctgttggtg...

Basic information

species Zea mays
transcript GRMZM2G064695_T01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G064695_T03 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os02g40830.1 (Oryza sativa), 5'ss of exon 4
GTAAAATGTTAGGCCAGATTCTGATAACGAAACAAACTGGTCCAGAGGGAAAGATTGTGAGCAAGgttagaacttact----tgaggccatcttttgcctttatatgtttctgtttgaactttgaaccgtgattggcttcatgacacatttgctattggtctgttggtg
  |||||| | |||||||||||| |||| ||||||||||||||| |||| ||||||||||||||||||||   ||| |    ||  |||  |||  || | |||||  | |  ||||||||   | | |        ||  |    |     |  ||  ||  ||||||
CAAAAATGCTTGGCCAGATTCTGGTAACAAAACAAACTGGTCCACAGGGGAAGATTGTGAGCAAGgttagtttttagtaatatgtagcccccttcagcatctatat--tccaatttgaactgcaatcagcttgccattttgttttgctaccacagtt--tcatttggtg
















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|211374289|gb|FL290759.1|FL290759
EST:     AGATTCTGATAACGAAACAAACTGGTCCAGAGGGAAAGAATGTGAGCCAG                         GTCTACTTGTGTGAGAAACTATCTCTTACTAATGAG
genomic: AGATTCTGATAACGAAACAAACTGGTCCAGAGGGAAAGATTGTGAGCAAGgttagaactt ... tcttcggcagGTCTACTTGTGTGAGAAACTATCTCTTACTAATGAG
EST: gi|71760334|gb|DR958271.1|DR958271
EST:     AGATTCTGATAACGAAACAAACTGGTCCAGAGGGAAAGATTGTGAGCAAG                         GTCTACTTGTGTGAGAAACTATCTCTTACTAATGAGATGTACTTCGCCATC
genomic: AGATTCTGATAACGAAACAAACTGGTCCAGAGGGAAAGATTGTGAGCAAGgttagaactt ... tcttcggcagGTCTACTTGTGTGAGAAACTATCTCTTACTAATGAGATGTACTTCGCCATC
EST: gi|149076126|gb|EE164711.2|EE164711
EST:     AGATTCTGATAACGAAACAAACTGGTCCAGAGGGAAAGATTGTGAGCAAG                         GTCTACTTGTGTGAGAAACTATCTCTTACTAATGAGATGTACTTCGCCATC
genomic: AGATTCTGATAACGAAACAAACTGGTCCAGAGGGAAAGATTGTGAGCAAGgttagaactt ... tcttcggcagGTCTACTTGTGTGAGAAACTATCTCTTACTAATGAGATGTACTTCGCCATC
EST: gi|149094704|gb|EE180255.2|EE180255
EST:     AGATTCTGATAACGAAACAAACTGGTCCAGAGGGAAAGATTGTGAGCAAG                         GTCTACTTGTGTGAGAAACTATCTCTTACTAATGAGATGTACTTCGCCATC
genomic: AGATTCTGATAACGAAACAAACTGGTCCAGAGGGAAAGATTGTGAGCAAGgttagaactt ... tcttcggcagGTCTACTTGTGTGAGAAACTATCTCTTACTAATGAGATGTACTTCGCCATC
EST: gi|148935326|gb|EC879367.2|EC879367
EST:     AGATTCTGATAACGAAACAAACTGGTCCAGAGGGAAAGATTGTGAGCAAG                         GTCTACTTGTGTGAGAAACTATCTCTTACTAATGAGATGTACTTCGCCATC
genomic: AGATTCTGATAACGAAACAAACTGGTCCAGAGGGAAAGATTGTGAGCAAGgttagaactt ... tcttcggcagGTCTACTTGTGTGAGAAACTATCTCTTACTAATGAGATGTACTTCGCCATC
EST: gi|13382325|gb|BG459000.1|BG459000
EST:     AGATTCTGATAACGAAACAAACTGGTCCAGAGGGAAAGATTGTGAGCAAG                         GTCTACTTGTGTGAGAAACTATCTCTTACTAATGAGATGTACTTCGCCATC
genomic: AGATTCTGATAACGAAACAAACTGGTCCAGAGGGAAAGATTGTGAGCAAGgttagaactt ... tcttcggcagGTCTACTTGTGTGAGAAACTATCTCTTACTAATGAGATGTACTTCGCCATC
EST: gi|67017499|gb|CO446248.1|CO446248
EST:     AGATTCTGATAACGAAACAAACTGGTCCAGAGGGAAAGATTGTGAGCAAG                         GTCTACTTGTGTGAGAAACTATCTCTTACTAATGAGATGTACTTCGCCATC
genomic: AGATTCTGATAACGAAACAAACTGGTCCAGAGGGAAAGATTGTGAGCAAGgttagaactt ... tcttcggcagGTCTACTTGTGTGAGAAACTATCTCTTACTAATGAGATGTACTTCGCCATC
EST: gi|91872808|gb|EB402765.1|EB402765
EST:     AGATTCTGATAACGAAACAAACTGGTCCAGAGGGAAAGATTGTGAGCAAG                         GTCTACTTGTGTGAGAAACTATCTCTTACTAATGAGATGTACTTCGCCATC
genomic: AGATTCTGATAACGAAACAAACTGGTCCAGAGGGAAAGATTGTGAGCAAGgttagaactt ... tcttcggcagGTCTACTTGTGTGAGAAACTATCTCTTACTAATGAGATGTACTTCGCCATC
EST: gi|148951069|gb|EC896728.2|EC896728
EST:     AGATTCTGATAACGAAACAAACTGGTCCAGAGGGAAAGATTGTGAGCAAG                         GTCTAATTGTGTGAGAAACTATCTCT
genomic: AGATTCTGATAACGAAACAAACTGGTCCAGAGGGAAAGATTGTGAGCAAGgttagaactt ... tcttcggcagGTCTACTTGTGTGAGAAACTATCTCT
EST: gi|149017003|gb|EE154318.2|EE154318
EST:     AGATTCTGATAACGAAACAAACTGGTCCAGAGGGAAAGATTGTGAGCAAG                         GTCTACTTGTGTGAGAAACTATCTCTTACTAATGAGATGTACTTCGCCATC
genomic: AGATTCTGATAACGAAACAAACTGGTCCAGAGGGAAAGATTGTGAGCAAGgttagaactt ... tcttcggcagGTCTACTTGTGTGAGAAACTATCTCTTACTAATGAGATGTACTTCGCCATC
EST: gi|76282776|gb|DV022344.1|DV022344
EST:     AGATTCTGATAACGAAACAAACTGGTCCAGAGGGAAAGATTGTGAGCAAG                         GTCTACTTGTGTGAGAAACTATCTCTTACTAATGAGATGTACTTCGCCATC
genomic: AGATTCTGATAACGAAACAAACTGGTCCAGAGGGAAAGATTGTGAGCAAGgttagaactt ... tcttcggcagGTCTACTTGTGTGAGAAACTATCTCTTACTAATGAGATGTACTTCGCCATC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTAAAATGTTAGGCCAGATTCTGATAACGAAACAAACTGGTCCAGAGGGAAAGATTGTGAGCAAGgttagaacttacttgaggccatcttttgcctttatatgtttctgtttgaactttgaaccgtgattggcttcatgacacatttgctattggtctgttggtg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG