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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTTATCTTCCAGTAGGATACAATGGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcccaaaatacttgttaaaacgagtcttaactgttgtttcaagcttgaaacctttattttgtgtgctgcctgttgctcttttgtttaattatttctctatttttag

Basic information

species Zea mays
transcript GRMZM2G029566_T01
intron # 5
splice site 5'
intron type U2

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|211126134|gb|FL125776.1|FL125776
EST:     GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAG                         GGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
genomic: GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
EST: gi|71328229|gb|DR800748.1|DR800748
EST:     GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAG                         GGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
genomic: GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
EST: gi|149044247|gb|EE047493.2|EE047493
EST:     GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAG                         GGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
genomic: GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
EST: gi|149101399|gb|EE187518.2|EE187518
EST:     GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAG                         GGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
genomic: GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
EST: gi|148969714|gb|EE020586.2|EE020586
EST:     GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAG                         GGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
genomic: GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
EST: gi|32851376|gb|CD991057.1|CD991057
EST:     GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAG                         GGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
genomic: GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
EST: gi|60348819|gb|DN215792.1|DN215792
EST:     GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAG                         GGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
genomic: GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
EST: gi|148990772|gb|EE032185.2|EE032185
EST:     GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAG                         GGGACAAGGACATCCCACAGGAAACTCCGCTCCTTATTTTGTTCCCTCCCA
genomic: GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
EST: gi|148932701|gb|EC876670.2|EC876670
EST:     GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAG                         GGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
genomic: GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
EST: gi|148940815|gb|EC885642.2|EC885642
EST:     GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAG                         GGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
genomic: GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
EST: gi|148964333|gb|EC905725.2|EC905725
EST:     GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAG                         GGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
genomic: GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
EST: gi|78124353|gb|DV542737.1|DV542737
EST:     GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAG                         GGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
genomic: GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
EST: gi|148956082|gb|EC901838.2|EC901838
EST:     GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAG                         GGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
genomic: GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
EST: gi|148955041|gb|EC900548.2|EC900548
EST:     GGCGAGCATCATCTTTTAGTTGTGTCTGGAACCAATGTCATTAGGCCCAG                         GGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
genomic: GGCGAGCATCATCTAT-AGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
EST: gi|148983240|gb|EE029206.2|EE029206
EST:     GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCCG                         GGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
genomic: GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
EST: gi|149042087|gb|EE047065.2|EE047065
EST:     GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAG                         GGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
genomic: GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
EST: gi|148949167|gb|EC894603.2|EC894603
EST:     GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAG                         GGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
genomic: GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
EST: gi|71421618|gb|DR805518.1|DR805518
EST:     GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAG                         GGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
genomic: GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
EST: gi|148941367|gb|EC886277.2|EC886277
EST:     GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAG                         GGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
genomic: GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
EST: gi|148959990|gb|EE153229.2|EE153229
EST:     GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAG                         GGGAACA-GGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCT
genomic: GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGA-CAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCT
EST: gi|76920587|gb|DV168250.1|DV168250
EST:     GGGCTAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAG                         GGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCCTCGC
genomic: GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCC-TCGC
EST: gi|149009361|gb|EE041411.2|EE041411
EST:     GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAG                         GGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
genomic: GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
EST: gi|148946154|gb|EC891448.2|EC891448
EST:     GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAG                         GGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
genomic: GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCA
EST: gi|89764162|gb|DY691069.1|DY691069
EST:     GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAG                         GGGACAAGGACATCCAACAGGAAACTCCGCCTC-TTATTTTGGTCCCTCGC
genomic: GGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGC-TCCTTATTTTGGTCCCTCGC

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: 237

GTTTTATCTTCCAGTAGGATACAATGGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCAGAAGCTTGATTTTGAGCTTGAGATG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 231

GTTTTATCTTCCAGTAGGATACAATGGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCAGAAGCTTGATTTTGAGCTTGAGATG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 173

GTTTTATCTTCCAGTAGGATACAATGGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCAGAAGCTTGATTTTGAGCTTGAGATG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1664

GTTTTATCTTCCAGTAGGATACAATGGGCGAGCATCATCTATAGTTGTGTCTGGAACCAATGTCATTAGGCCCAGgtgtgcatcc ... ctatttttagGGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCAGAAGCTTGATTTTGAGCTTGAGATG