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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcatttctgacaatcccgttaattgtagttttccaaactttcacgattaattttttattagcatttctaatagacaaacttttactttacttctaggagtacttttatcatacatttattagttccttgcatcaacacttaacttatttgtacag

Basic information

species Zea mays
transcript GRMZM2G174696_T02
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G174696_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os03g20750.1 (Oryza sativa), 5'ss of exon 5
CTTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcatttctgacaatcccgttaattgtagttttccaaactttcacgattaattttttattagcatttctaatagacaaacttttactttacttctaggagtacttttatcatacatttattagttccttgcatcaacacttaacttatttgtacag
||||| || ||| | |||||||| ||||| ||||||||||| |||||||||||    ||||| ||| |  |   |        ||  ||||    | |   | |||  | | | || ||| || ||    |||||  |  || | ||    || | |||  |||  | || | |      |||      ||| || ||  || |||  ||
CTTACTCATGAGCCGCATTACTCCCAAGGAATGTTTAACTTTGACTACAAGgtcagtatttcagactacacttct--------ttgaccaataagtgaatttcaataatctgtgagaattacttattagaaaactactttttaatttt---gattgcttccatctgatatctgtagtcctctt------acaattcacaaatctgtgtag
















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|31353843|gb|CD438200.1|CD438200
EST:     TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAG                         GGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
genomic: TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcattt ... atttgtacagGGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
EST: gi|51593036|gb|CV072182.1|CV072182
EST:     TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAG                         GGAAGTGACTATCGAGCACAATTCCAAATTGGGGAACAATGCATTCTATGG
genomic: TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcattt ... atttgtacagGGAAGTGACTATCGAGCACAATTCCAAATTGGG-AACAATGCATTCTATGG
EST: gi|148944949|gb|EC890114.2|EC890114
EST:     TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAG                         GGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
genomic: TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcattt ... atttgtacagGGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
EST: gi|71428447|gb|DR809497.1|DR809497
EST:     TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAG                         GGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
genomic: TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcattt ... atttgtacagGGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
EST: gi|76294141|gb|DV033709.1|DV033709
EST:     TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAG                         GGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
genomic: TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcattt ... atttgtacagGGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
EST: gi|148937183|gb|EC881364.2|EC881364
EST:     TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACGAG                         GGAAGTGACTATCGAGCACAATTCCAAATTGAGAACAATGCATTCTATGGT
genomic: TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcattt ... atttgtacagGGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
EST: gi|5268993|gb|AI770957.1|AI770957
EST:     TTACCCAAGAAGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAG                         GGAAGTGACTATCGAGCACAATT
genomic: TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcattt ... atttgtacagGGAAGTGACTATCGAGCACAATT
EST: gi|6095402|gb|AW120069.1|AW120069
EST:     TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAG                         GGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
genomic: TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcattt ... atttgtacagGGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
EST: gi|6095403|gb|AW120070.1|AW120070
EST:     TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAG                         GGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
genomic: TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcattt ... atttgtacagGGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
EST: gi|149090165|gb|EE179465.2|EE179465
EST:     TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAG                         GGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATG
genomic: TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcattt ... atttgtacagGGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATG
EST: gi|89762284|gb|DY689955.1|DY689955
EST:     TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAG                         GGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
genomic: TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcattt ... atttgtacagGGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
EST: gi|6095404|gb|AW120071.1|AW120071
EST:     TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAG                         GGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT
genomic: TTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcattt ... atttgtacagGGAAGTGACTATCGAGCACAATTCCAAATTGGGAACAATGCATTCTATGGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTTACCCAAGAGGCACATTACTCACAAGGGATGTTTAACTTCGACTACAAGgttgtcatttctgacaatcccgttaattgtagttttccaaactttcacgattaattttttattagcatttctaatagacaaacttttactttacttctaggagtacttttatcatacatttattagttccttgcatcaacacttaacttatttgtacag

- - -  AAGAGG