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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATCAACCAGGGCACAAGCAGCAGAATGGGCAATCTCTCTCAAATgtgagtttattgttatggtttcacttcatgtatttatacctacatcatagttgtaataactaatgacagcacacactgttgcaagcctatgaaacattgt...

Basic information

species Zea mays
transcript GRMZM2G063462_T01
intron # 4
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|22542520|gb|BU092958.1|BU092958
EST:     TGATCAACCAGGGCACAAGCAGCAGAATGGGCAATCTCTCTCAAAT                         GAAGGACGAGACAAATCTTCAAGTGATATACCCCCTTGCTCTACTATCTTC
genomic: TGATCAACCAGGGCACAAGCAGCAGAATGGGCAATCTCTCTCAAATgtgagtttat ... tttggtgtagGAAGGACGAGACAAATCTTCAAGTGATATACCACCTTGCTCTACTATCTTC
EST: gi|76933319|gb|DV173415.1|DV173415
EST:     TGATCAACCAGGGCACAAGCAGCAGAATGGGCAATCTCTCTCAAAT                         GAAGGACGAGACAAATCTTCAAGTGATATACCACCTTGCTCTACTATCTTC
genomic: TGATCAACCAGGGCACAAGCAGCAGAATGGGCAATCTCTCTCAAATgtgagtttat ... tttggtgtagGAAGGACGAGACAAATCTTCAAGTGATATACCACCTTGCTCTACTATCTTC
EST: gi|32846935|gb|CD986616.1|CD986616
EST:     TGATCAACCAGGGCACAAGCAGCAGAATGGGCAATCTCTCTCAAAT                         GAAGGACGAGACAAATCTTCAAGTGATATACCACCTTGCTCTACTATCTTC
genomic: TGATCAACCAGGGCACAAGCAGCAGAATGGGCAATCTCTCTCAAATgtgagtttat ... tttggtgtagGAAGGACGAGACAAATCTTCAAGTGATATACCACCTTGCTCTACTATCTTC
EST: gi|32856053|gb|CD995734.1|CD995734
EST:     TGATCAACCAGGGCACAAGCAGCAGAATGGGCAATCTCTCTCAAAT                         GAAGGACGAGACAAATCTTCAAGTGATATACCACCTTGCTCTACTATCTTC
genomic: TGATCAACCAGGGCACAAGCAGCAGAATGGGCAATCTCTCTCAAATgtgagtttat ... tttggtgtagGAAGGACGAGACAAATCTTCAAGTGATATACCACCTTGCTCTACTATCTTC
EST: gi|211307934|gb|FL324294.1|FL324294
EST:     TGATCAACCAGGGCACAAGCAGCAGAATGGGCAATCTCTCTCAAAT                         GAAGGACGAGACAAATCTTCAAGTGATATACCACCTTGCTCTACTATCTTC
genomic: TGATCAACCAGGGCACAAGCAGCAGAATGGGCAATCTCTCTCAAATgtgagtttat ... tttggtgtagGAAGGACGAGACAAATCTTCAAGTGATATACCACCTTGCTCTACTATCTTC
EST: gi|6022610|gb|AW067422.1|AW067422
EST:     TGATCAACCAGGGCACAAGCAGCAGAATGGGCAATCTCTCTCAAAT                         GAAGGACGAGACAAATCTTCAAGTGATATACCACCTTGCTCTACTATCTTC
genomic: TGATCAACCAGGGCACAAGCAGCAGAATGGGCAATCTCTCTCAAATgtgagtttat ... tttggtgtagGAAGGACGAGACAAATCTTCAAGTGATATACCACCTTGCTCTACTATCTTC
EST: gi|71758091|gb|DR956028.1|DR956028
EST:     TGATCAACCAGGGCACAAGCAGCAGAATGGGCAATCTCTCTCAAAT                         GAAGGACGAGACAAATCTTCAAGTGATATACCACCTTGCTCTACTATCTTC
genomic: TGATCAACCAGGGCACAAGCAGCAGAATGGGCAATCTCTCTCAAATgtgagtttat ... tttggtgtagGAAGGACGAGACAAATCTTCAAGTGATATACCACCTTGCTCTACTATCTTC
EST: gi|60345514|gb|DN212487.1|DN212487
EST:     TGATCAACCAGGGCACAAGCAGCAGAATGGGCAATCTCTCTCAAAT                         GAAGGACGAGACAAATCTTCAAGTGATATACCACCTTGCTCTACTATCTTC
genomic: TGATCAACCAGGGCACAAGCAGCAGAATGGGCAATCTCTCTCAAATgtgagtttat ... tttggtgtagGAAGGACGAGACAAATCTTCAAGTGATATACCACCTTGCTCTACTATCTTC
EST: gi|78091465|gb|DV519839.1|DV519839
EST:     TGATCAACCAGGGCACAAGCAGCAGAATGGGCAATCTCTCTCAAAT                         GAAGGACGAGACAAATCTTCAAGTGATATACCACCTTGCTCTACTATCTTC
genomic: TGATCAACCAGGGCACAAGCAGCAGAATGGGCAATCTCTCTCAAATgtgagtttat ... tttggtgtagGAAGGACGAGACAAATCTTCAAGTGATATACCACCTTGCTCTACTATCTTC

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: 241

TGATCAACCAGGGCACAAGCAGCAGAATGGGCAATCTCTCTCAAATgtgagtttat ... tttggtgtagGAAGGACGAGACAAATCTTCAAGTGATATACCACCTTGCTCTACTATCTTCATTGCAAATTTGGGACATACATGCACAGAGGACGAACTCAAGGAAGTTT


Block sizes: 46 (upstream exon), 46 (downstream exon)
Score: 116

TGATCAACCAGGGCACAAGCAGCAGAATGGGCAATCTCTCTCAAATgtgagtttat ... tttggtgtagGAAGGACGAGACAAATCTTCAAGTGATATACCACCTTGCTCTACTATCTTCATTGCAAATTTGGGACATACATGCACAGAGGACGAACTCAAGGAAGTTT


Block sizes: 46 (upstream exon), 45 (downstream exon)
Score: 147

TGATCAACCAGGGCACAAGCAGCAGAATGGGCAATCTCTCTCAAATgtgagtttat ... tttggtgtagGAAGGACGAGACAAATCTTCAAGTGATATACCACCTTGCTCTACTATCTTCATTGCAAATTTGGGACATACATGCACAGAGGACGAACTCAAGGAAGTTT


Block sizes: 46 (upstream exon), 48 (downstream exon)
Score: 79

TGATCAACCAGGGCACAAGCAGCAGAATGGGCAATCTCTCTCAAATgtgagtttat ... tttggtgtagGAAGGACGAGACAAATCTTCAAGTGATATACCACCTTGCTCTACTATCTTCATTGCAAATTTGGGACATACATGCACAGAGGACGAACTCAAGGAAGTTT