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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGAGGGCGAAACCCACAAACCCTCTCCCTCCCGTACTCCGGCCTACACATCCAGGGGCGATGACGCTGGGTAGCTCCGGCGCCGGATCGAGCGTCGTCGgtaagtaacctactcacccatccctttttttcatgccgtggatcttccaatcggatccggtctttggtcgaccttgcgcgggatgcgcgtgccccgatct...

Basic information

species Zea mays
transcript GRMZM2G071010_T02
intron # 1
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|32923039|gb|CF027851.1|CF027851
EST:     TCCAGGGGCGATGACGCTGGGTAGCTCCGGCGCCGGATCGAGCGTCGTCG                         TTCCCCGAAACTTCAGGCTATTAGAGGAGCTCGAGCGTGGAGAGAAGGGCA
genomic: TCCAGGGGCGATGACGCTGGGTAGCTCCGGCGCCGGATCGAGCGTCGTCGgtaagtaacc ... aaaaatgcagTTCCCCGAAACTTCAGGCTATTAGAGGAGCTCGAGCGTGGAGAGAAGGGCA
EST: gi|33095289|gb|CF055283.1|CF055283
EST:     TCCAGGGGCGATGACGCTGGGTAGCTCCGGCGCCGGATCGAGCGTCGTCG                         TTCCCCGAAACTTCAGGCTATTATTGGAGCTCGAGCGTGGAGAGAAGGGCA
genomic: TCCAGGGGCGATGACGCTGGGTAGCTCCGGCGCCGGATCGAGCGTCGTCGgtaagtaacc ... aaaaatgcagTTCCCCGAAACTTCAGGCTATTAGAGGAGCTCGAGCGTGGAGAGAAGGGCA
EST: gi|211256805|gb|FL058291.1|FL058291
EST:     TCCAGGGGCGATGACGCTGGGTAGCTCCGGCGCCGGATCGAGCGTCGTCG                         TTCCCCGAAACTTCAGGCTATTAGAGGAGCTCGAGCGTGGAGAAAAGGGCA
genomic: TCCAGGGGCGATGACGCTGGGTAGCTCCGGCGCCGGATCGAGCGTCGTCGgtaagtaacc ... aaaaatgcagTTCCCCGAAACTTCAGGCTATTAGAGGAGCTCGAGCGTGGAGAGAAGGGCA
EST: gi|71437348|gb|DR818398.1|DR818398
EST:     TCCAGGGGCGATGACGCTGGGTAGCTCCGGCGCCGGATCGAGCGTCGTCG                         TTCCCCGAAACTTCAGGCTATTAGAGGAGCTCGAGCGTGGAGAGAAGGGCA
genomic: TCCAGGGGCGATGACGCTGGGTAGCTCCGGCGCCGGATCGAGCGTCGTCGgtaagtaacc ... aaaaatgcagTTCCCCGAAACTTCAGGCTATTAGAGGAGCTCGAGCGTGGAGAGAAGGGCA
EST: gi|211040687|gb|FL105663.1|FL105663
EST:     TCCAGGGGCGATGACGCTGGGTAGCTCCGGCGCCGGATCGAGCGTCGTCG                         TTCCCCGAAACTTCAGGCTATTAGAGGAGCTCGAGCGTG
genomic: TCCAGGGGCGATGACGCTGGGTAGCTCCGGCGCCGGATCGAGCGTCGTCGgtaagtaacc ... aaaaatgcagTTCCCCGAAACTTCAGGCTATTAGAGGAGCTCGAGCGTG
EST: gi|211055493|gb|FL105750.1|FL105750
EST:     TCCAGGGGCGATGACGCTGGGTAGCTCCGGCGCCGGATCGAGCGTCGTCG                         TTCCCCGAAACTTCAGGCTATTA
genomic: TCCAGGGGCGATGACGCTGGGTAGCTCCGGCGCCGGATCGAGCGTCGTCGgtaagtaacc ... aaaaatgcagTTCCCCGAAACTTCAGGCTATTA
EST: gi|32929652|gb|CF034464.1|CF034464
EST:     TCCAGGGGCGATGACGCTGGGTAGCTCCGGCGCCGGATCGAGCGTCGTCG                         TTCCCCGAAACTTCAGGCTATTAGAGGAGCTCGAGCGTGGAGAGAAGGGCA
genomic: TCCAGGGGCGATGACGCTGGGTAGCTCCGGCGCCGGATCGAGCGTCGTCGgtaagtaacc ... aaaaatgcagTTCCCCGAAACTTCAGGCTATTAGAGGAGCTCGAGCGTGGAGAGAAGGGCA
EST: gi|211437842|gb|FL105651.1|FL105651
EST:     TCCAGGGGCGATSACGCTGGGTAGCTCCGGCGCCGGATCGAGCGTCGTCG                         TTCCCCGAAACTTCAGGCTATTAGAGGAGCTCGAGCGTGGAGAGAAGGGCA
genomic: TCCAGGGGCGATGACGCTGGGTAGCTCCGGCGCCGGATCGAGCGTCGTCGgtaagtaacc ... aaaaatgcagTTCCCCGAAACTTCAGGCTATTAGAGGAGCTCGAGCGTGGAGAGAAGGGCA
EST: gi|33104245|gb|CF064205.1|CF064205
EST:     TCCAGGGGCGATGACGCTGGGTAGCTCCGGCGCCGGATCGAGCGTCGTCGG                         TTCCCCGAAACTTCAGGCTATTAGAGGAGCTCGAGCGTGGAGAGAAGGGC
genomic: TCCAGGGGCGATGACGCTGGGTAGCTCCGGCGCCGGATCGAGCGTCGTC-Ggtaagtaacc ... aaaaatgcagTTCCCCGAAACTTCAGGCTATTAGAGGAGCTCGAGCGTGGAGAGAAGGGC

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: 517

GCGAGGGCGAAACCCACAAACCCTCTCCCTCCCGTACTCCGGCCTACACATCCAGGGGCGATGACGCTGGGTAGCTCCGGCGCCGGATCGAGCGTCGTCGgtaagtaacc ... aaaaatgcagTTCCCCGAAACTTCAGGCTATTAGAGGAGCTCGAGCGTGGAGAGAAGGGCATTGGTGATGGAACAGTGAGCTATGGAATGGATGATGCCGATGACATCTA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 757

GCGAGGGCGAAACCCACAAACCCTCTCCCTCCCGTACTCCGGCCTACACATCCAGGGGCGATGACGCTGGGTAGCTCCGGCGCCGGATCGAGCGTCGTCGgtaagtaacc ... aaaaatgcagTTCCCCGAAACTTCAGGCTATTAGAGGAGCTCGAGCGTGGAGAGAAGGGCATTGGTGATGGAACAGTGAGCTATGGAATGGATGATGCCGATGACATCTA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 458

GCGAGGGCGAAACCCACAAACCCTCTCCCTCCCGTACTCCGGCCTACACATCCAGGGGCGATGACGCTGGGTAGCTCCGGCGCCGGATCGAGCGTCGTCGgtaagtaacc ... aaaaatgcagTTCCCCGAAACTTCAGGCTATTAGAGGAGCTCGAGCGTGGAGAGAAGGGCATTGGTGATGGAACAGTGAGCTATGGAATGGATGATGCCGATGACATCTA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 341

GCGAGGGCGAAACCCACAAACCCTCTCCCTCCCGTACTCCGGCCTACACATCCAGGGGCGATGACGCTGGGTAGCTCCGGCGCCGGATCGAGCGTCGTCGgtaagtaacc ... aaaaatgcagTTCCCCGAAACTTCAGGCTATTAGAGGAGCTCGAGCGTGGAGAGAAGGGCATTGGTGATGGAACAGTGAGCTATGGAATGGATGATGCCGATGACATCTA