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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCCTTCGCACACCAATCATTGTATTTACACAGACAGGCTCCATGGCTGTCCTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcctttgtggttccccttcatgacaataacctaatctttcatgtgatattatctatgaaacatgctttgcatcgagctagttcatagccttcctgaatccaatgattgaaattggcaaatgtgctctggagtagactgatatttaggggaacaattgttgtag

Basic information

species Zea mays
transcript GRMZM2G033526_T02
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G033526_T01 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os10g42100.1 (Oryza sativa), 5'ss of exon 10
CCCTTCGCACACCAATCATTGTATTTACACAGACAGGCTCCATGGCTGTCCTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcctttgtggttccccttcatgacaataacctaatctttcatgtgatattatctatgaaacatgctttgcatcgagctagttcatagccttcctgaatccaatgattgaaattggcaaatgtgctctggagtagactgatattta--ggggaacaattgttgtag
||||| |||| ||||| ||||| |||||||  || ||||||||||| ||||| || ||||| || || |||||||||||| | |||||||||||||| |||| ||||  |||  | || |     |     |   || |||||||  |    || | | |       |     |  ||| |  | ||  | |  ||   | |||  ||||||  || |||  |||  ||||||||||  ||||||   |||   || |||  |||||| ||
CCCTTTGCACCCCAATTATTGTGTTTACACGAACCGGCTCCATGGCAGTCCTTCTCAGCCACTACCGGCCCTCGTCTACAATTTTTGCATTTACAAATGAgtaagttttttttggatttctacctacatgcaatgccaaatcttttttccc-tagtgttttcattttag----taaatcaattttgtaaacattctaaataaata-aatgataaaagttgaaaaagatgctctggag--gactgaccattatgaggaaactgttgttgcag
















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|211275556|gb|FL192922.1|FL192922
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|6526771|gb|AW216050.1|AW216050
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|21759868|gb|BQ635409.1|BQ635409
EST:     CTCCTGAGCCACTATCGTCCCTCGTCTACACTATTTGCATTTCCAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|60395622|gb|DN228492.1|DN228492
EST:     CTCCTGAGCCACTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|60356976|gb|DN223949.1|DN223949
EST:     CTCCTGAGCCACTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|45567965|gb|CK985835.1|CK985835
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|13177888|gb|BG349071.1|BG349071
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|20802326|gb|BQ293376.1|BQ293376
EST:     CTCCTGAGCCACTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|31357830|gb|CD442187.1|CD442187
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|60355665|gb|DN222638.1|DN222638
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|76287860|gb|DV027428.1|DV027428
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|60355637|gb|DN222610.1|DN222610
EST:     CTCCTGAGCCACTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|116822697|gb|EC866119.1|EC866119
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|60351363|gb|DN218336.1|DN218336
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|37418065|gb|CF646693.1|CF646693
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|33467026|gb|CF244075.1|CF244075
EST:     ACACTA-TTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: ACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|213182699|gb|FM195337.1|FM195337
EST:     CTCCTGAGCCACTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|78025170|gb|DV493557.1|DV493557
EST:     CTCCTGAGCCACTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|24765370|gb|CA400529.1|CA400529
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|60341691|gb|DN208664.1|DN208664
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|60394678|gb|DN227548.1|DN227548
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|5739696|gb|AI947272.1|AI947272
EST:     CTCCTGAGCCACTATCGTCCCTCGTCTACACTATTTGCGTTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGGGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|60397119|gb|DN229938.1|DN229938
EST:     CTCCTGAGCCACTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|4967114|gb|AI692056.1|AI692056
EST:     CGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|60400092|gb|DN232899.1|DN232899
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|60338482|gb|DN205455.1|DN205455
EST:     CTCCTGAGCCACTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|60354896|gb|DN221869.1|DN221869
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|148929002|gb|EC874192.2|EC874192
EST:     TCCCTCGTCTCCACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: TCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 339

CCCTTCGCACACCAATCATTGTATTTACACAGACAGGCTCCATGGCTGTCCTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCACATGCAGTTCTCTGACGACGCAGAAGAAACTTTCTCCAGAGCAATTAGC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 193

CCCTTCGCACACCAATCATTGTATTTACACAGACAGGCTCCATGGCTGTCCTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCACATGCAGTTCTCTGACGACGCAGAAGAAACTTTCTCCAGAGCAATTAGC


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 191

CCCTTCGCACACCAATCATTGTATTTACACAGACAGGCTCCATGGCTGTCCTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCACATGCAGTTCTCTGACGACGCAGAAGAAACTTTCTCCAGAGCAATTAGC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 685

CCCTTCGCACACCAATCATTGTATTTACACAGACAGGCTCCATGGCTGTCCTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCACATGCAGTTCTCTGACGACGCAGAAGAAACTTTCTCCAGAGCAATTAGC