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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTGCTGTCTTACAGCTCGAGGTTGAAGGCACCGGTTTTCTGTACAGACAAGTGAGGAACATGgtaagtttaacgtagtgtgtaacagtgtaaatgcctgtttcaaatttagcttctttctgatttacatatttgtaccttaacatttgtgctgagtcctcca...

Basic information

species Zea mays
transcript GRMZM2G095782_T01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G095782_T04 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os05g19954.2 (Oryza sativa), 5'ss of exon 5
GGTGCTGTCTTACAGCTCGAGGTTGAAGGCACCGGTTTTCTGTACAGACAAGTGAGGAACATGgtaagtttaacgtagtgtgtaacagtgtaaatgcctgtttcaaatttagcttctttctgatttacatatttgtacctta--acatttgtgctgagtcctcca-----
|||||| |||||||||| ||| |||||||||| || ||||||||||||||||| ||||||||||||| |||    |    |  |      ||||| | ||| |  | ||||  ||| |      |||||||||   ||| ||  |   | |   || |||||  |     
GGTGCTATCTTACAGCTTGAGATTGAAGGCACTGGCTTTCTGTACAGACAAGTTAGGAACATGgtaattttgttctcacttcaa------taaattcatgtgtggactttaatttcgtaacatcttacatattctgaccatatgagggtagaaatg-gtcctaaataata
















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|211365431|gb|FL362340.1|FL362340
EST:     GCTCGAGGTTGAAGGCACCNGGTTTTCTGTACAGACAAGTGAGGAACATG                         GTTGCTTTGCTGCTTCA-GTCGGAA-GGA-GCACTTC
genomic: GCTCGAGGTTGAAGGCACC-GGTTTTCTGTACAGACAAGTGAGGAACATGgtaagtttaa ... gatgacgcagGTTGCTTTGCTGCTTCAAGTCGGAAAGGAAGCACTTC
EST: gi|32934821|gb|CF039633.1|CF039633
EST:     GTACAGACAAGTGAGGAACATG                         GTTGCTTTGCTGCTTCAAGTCGGAAAGGAAGCACTTCCTCCTGATATCGTT
genomic: GTACAGACAAGTGAGGAACATGgtaagtttaa ... gatgacgcagGTTGCTTTGCTGCTTCAAGTCGGAAAGGAAGCACTTCCTCCTGATATCGTT
EST: gi|78091689|gb|DV520063.1|DV520063
EST:     AGCTCGAGGTTGAAGGCACCGGTTTTCTGTACAGACAAGTGAGGAACATG                         GTTGCTTTGCTGCTTCAAGTCGGAAAGGAAGCACTTCCTCCTGATATCGTT
genomic: AGCTCGAGGTTGAAGGCACCGGTTTTCTGTACAGACAAGTGAGGAACATGgtaagtttaa ... gatgacgcagGTTGCTTTGCTGCTTCAAGTCGGAAAGGAAGCACTTCCTCCTGATATCGTT
EST: gi|101390144|gb|EB817004.1|EB817004
EST:     AGCTCGAGGTTGAAGGCACCGGTTTTCTGTACAGACAAGTGAGGAACATG                         GTTGCTTTGTTGCTTCAAGTCGGAAAGGAAGCACTTCCTCCTGATATCGTT
genomic: AGCTCGAGGTTGAAGGCACCGGTTTTCTGTACAGACAAGTGAGGAACATGgtaagtttaa ... gatgacgcagGTTGCTTTGCTGCTTCAAGTCGGAAAGGAAGCACTTCCTCCTGATATCGTT
EST: gi|166612383|gb|EG320172.1|EG320172
EST:     CTGTACAGACAAGTGAGGAACATG                         GTTGCTTTGCTGCTTCAAGTCGGAAAGGAAGCACTTCCTTCTGATATCGTT
genomic: CTGTACAGACAAGTGAGGAACATGgtaagtttaa ... gatgacgcagGTTGCTTTGCTGCTTCAAGTCGGAAAGGAAGCACTTCCTCCTGATATCGTT
EST: gi|71317498|gb|DR795465.1|DR795465
EST:     AGCTCGAGGTTGAAGGCACCGGTTTTCTGTACAGACAAGTGAGGAACATG                         GTTGCTTTGCTGCTTCAAGTCGGAAAGGAAGCACTTCCTCCTGATATCGTT
genomic: AGCTCGAGGTTGAAGGCACCGGTTTTCTGTACAGACAAGTGAGGAACATGgtaagtttaa ... gatgacgcagGTTGCTTTGCTGCTTCAAGTCGGAAAGGAAGCACTTCCTCCTGATATCGTT
EST: gi|166568962|gb|EG178995.1|EG178995
EST:     CTGTACAGACAAGTGAGGAACATG                         GTTGCTTTGCTGCTTCAAGTCGGAAAGGAAGCACTTCCTTCTGATATCGTT
genomic: CTGTACAGACAAGTGAGGAACATGgtaagtttaa ... gatgacgcagGTTGCTTTGCTGCTTCAAGTCGGAAAGGAAGCACTTCCTCCTGATATCGTT
EST: gi|76013635|gb|DT940805.1|DT940805
EST:     AGCTCGAGGTTGAAGGCACCGGTTTTCTGTACAGACAAGTGAGGAACATG                         GTTGCTTTGCTGCTTCAAGTCGGAAAGGAAGCACTTCCTCCTGATATCGTT
genomic: AGCTCGAGGTTGAAGGCACCGGTTTTCTGTACAGACAAGTGAGGAACATGgtaagtttaa ... gatgacgcagGTTGCTTTGCTGCTTCAAGTCGGAAAGGAAGCACTTCCTCCTGATATCGTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTGCTGTCTTACAGCTCGAGGTTGAAGGCACCGGTTTTCTGTACAGACAAGTGAGGAACATGgtaagtttaacgtagtgtgtaacagtgtaaatgcctgtttcaaatttagcttctttctgatttacatatttgtaccttaacatttgtgctgagtcctcca

- - - - - - - - - - - TTGAAG