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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTCTGGACTCGAGCACTGAACATACCATTGCCTCATTCTTATGTTTTTCTGGGCTCATGTGGCGATCAACAGGCCAGGGCTGACAATGATGCCCACCAGgtcaatttcaatctttccaatccatcatacttgaaactgaggttctttacaattatttgttatttactcgatgcttgtaattttacttctcatccatttg...

Basic information

species Zea mays
transcript GRMZM2G078458_T05
intron # 6
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|71447103|gb|DR828153.1|DR828153
EST:     TGGGCTCATGTGGCGATCAACAGGCCAGGGCTGACAATGATGCCCACCAG                         GAAATTGATATTACAGCTAAGGATTGTAG
genomic: TGGGCTCATGTGGCGATCAACAGGCCAGGGCTGACAATGATGCCCACCAGgtcaatttca ... tttttggcagGAAATTGATATTACAGCTAAGGATTGTAG
EST: gi|94477458|gb|EB706416.1|EB706416
EST:     TGGGCTCATGTGGCGATCAACAAGCCAGGGCTGACAATGATGCCCACCAG                         GAATTTGATATTACAGCTAAGGATTGTAGTGCTGATGAGAATTCTAAACCA
genomic: TGGGCTCATGTGGCGATCAACAGGCCAGGGCTGACAATGATGCCCACCAGgtcaatttca ... tttttggcagGAAATTGATATTACAGCTAAGGATTGTAGTGCTGATGAGAATTCTAAACCA
EST: gi|148953147|gb|EE152628.2|EE152628
EST:     TGGGCTCATGTGGCGATCAACAGGCCAGGGCTGACAATGATGCCCACCAG                         GAAATTGATATTACAGCTAAGGATTGTAGTGCTGATGAGAATTCTAAACCA
genomic: TGGGCTCATGTGGCGATCAACAGGCCAGGGCTGACAATGATGCCCACCAGgtcaatttca ... tttttggcagGAAATTGATATTACAGCTAAGGATTGTAGTGCTGATGAGAATTCTAAACCA
EST: gi|149112477|gb|EE295347.2|EE295347
EST:     TGGGCTCATGTGGCGATCAACAGGCCAGGGCTGACAATGATGCCCACCAG                         GAAATTGATATTACAGCTAAGGATTGTAGTGCTGATGAGAATTCTAAACCA
genomic: TGGGCTCATGTGGCGATCAACAGGCCAGGGCTGACAATGATGCCCACCAGgtcaatttca ... tttttggcagGAAATTGATATTACAGCTAAGGATTGTAGTGCTGATGAGAATTCTAAACCA
EST: gi|149079364|gb|EE168341.2|EE168341
EST:     TGGGCTCATGTGGCGATCAACAGGCCAGGGCTGACAATGATGCCCACCAG                         GAAATTGATATTACAGCTAAGGATTGTAGTGCTGATGAGAATTCTAAACCA
genomic: TGGGCTCATGTGGCGATCAACAGGCCAGGGCTGACAATGATGCCCACCAGgtcaatttca ... tttttggcagGAAATTGATATTACAGCTAAGGATTGTAGTGCTGATGAGAATTCTAAACCA
EST: gi|76928343|gb|DV171591.1|DV171591
EST:     TGGGCTCATGTGGCGATCAACAGGCCAGGGCTGACAATGATGCCCACCAG                         GAAATTGATATTACAGCTAAGGATTGTAGTGCTGATGAGAATTCTAAACCA
genomic: TGGGCTCATGTGGCGATCAACAGGCCAGGGCTGACAATGATGCCCACCAGgtcaatttca ... tttttggcagGAAATTGATATTACAGCTAAGGATTGTAGTGCTGATGAGAATTCTAAACCA

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: 46 (upstream exon), 49 (downstream exon)
Score: 78

CTTCTGGACTCGAGCACTGAACATACCATTGCCTCATTCTTATGTTTTTCTGGGCTCATGTGGCGATCAACAGGCCAGGGCTGACAATGATGCCCACCAGgtcaatttca ... tttttggcagGAAATTGATATTACAGCTAAGGATTGTAGTGCTGATGAGAATTCTAAACCAAGTAACACAGAGTCAATTTGGGTTGAGGGCCTTGTCCCAGGAATTGATT


Block sizes: 45 (upstream exon), 49 (downstream exon)
Score: 25

CTTCTGGACTCGAGCACTGAACATACCATTGCCTCATTCTTATGTTTTTCTGGGCTCATGTGGCGATCAACAGGCCAGGGCTGACAATGATGCCCACCAGgtcaatttca ... tttttggcagGAAATTGATATTACAGCTAAGGATTGTAGTGCTGATGAGAATTCTAAACCAAGTAACACAGAGTCAATTTGGGTTGAGGGCCTTGTCCCAGGAATTGATT


Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 29

CTTCTGGACTCGAGCACTGAACATACCATTGCCTCATTCTTATGTTTTTCTGGGCTCATGTGGCGATCAACAGGCCAGGGCTGACAATGATGCCCACCAGgtcaatttca ... tttttggcagGAAATTGATATTACAGCTAAGGATTGTAGTGCTGATGAGAATTCTAAACCAAGTAACACAGAGTCAATTTGGGTTGAGGGCCTTGTCCCAGGAATTGATT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 59

CTTCTGGACTCGAGCACTGAACATACCATTGCCTCATTCTTATGTTTTTCTGGGCTCATGTGGCGATCAACAGGCCAGGGCTGACAATGATGCCCACCAGgtcaatttca ... tttttggcagGAAATTGATATTACAGCTAAGGATTGTAGTGCTGATGAGAATTCTAAACCAAGTAACACAGAGTCAATTTGGGTTGAGGGCCTTGTCCCAGGAATTGATT