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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCGAGTTGTTCGCCCGCCACCTCGCCGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAGgtaagtcgccttcttttttttcatgcttttcgaatgtattgaccgcgtaggcctgtgttgcttatcggtgaattggacag

Basic information

species Zea mays
transcript GRMZM2G118316_T01
intron # 2
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|76922542|gb|DV169052.1|DV169052
EST:     CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAG                         GGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
genomic: CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAGgtaagtcgcc ... aattggacagGGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
EST: gi|74237423|gb|DT645337.1|DT645337
EST:     CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAG                         GGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
genomic: CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAGgtaagtcgcc ... aattggacagGGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
EST: gi|149101262|gb|EE187374.2|EE187374
EST:     CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAG                         GGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
genomic: CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAGgtaagtcgcc ... aattggacagGGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
EST: gi|78088193|gb|DV516586.1|DV516586
EST:     CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAG                         GGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
genomic: CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAGgtaagtcgcc ... aattggacagGGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
EST: gi|93017256|gb|EB642776.1|EB642776
EST:     CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAG                         GGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
genomic: CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAGgtaagtcgcc ... aattggacagGGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
EST: gi|211523404|gb|FL361945.1|FL361945
EST:     CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAG                         GGAGGGAGCGGCGGAGCCCGTGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
genomic: CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAGgtaagtcgcc ... aattggacagGGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
EST: gi|71757145|gb|DR955082.1|DR955082
EST:     CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAG                         GGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
genomic: CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAGgtaagtcgcc ... aattggacagGGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
EST: gi|211149678|gb|FL347659.1|FL347659
EST:     CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAG                         GGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
genomic: CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAGgtaagtcgcc ... aattggacagGGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
EST: gi|71771526|gb|DR969463.1|DR969463
EST:     CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAG                         GGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
genomic: CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAGgtaagtcgcc ... aattggacagGGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
EST: gi|211401713|gb|FL219582.1|FL219582
EST:     CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAG                         GGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
genomic: CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAGgtaagtcgcc ... aattggacagGGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
EST: gi|71427931|gb|DR808981.1|DR808981
EST:     CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAG                         GGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
genomic: CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAGgtaagtcgcc ... aattggacagGGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
EST: gi|91049687|gb|EB160105.1|EB160105
EST:     CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAG                         GGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
genomic: CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAGgtaagtcgcc ... aattggacagGGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
EST: gi|211401714|gb|FL219583.1|FL219583
EST:     CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAG                         GGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
genomic: CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAGgtaagtcgcc ... aattggacagGGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
EST: gi|91049823|gb|EB160241.1|EB160241
EST:     CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAG                         GGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
genomic: CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAGgtaagtcgcc ... aattggacagGGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
EST: gi|71769072|gb|DR967009.1|DR967009
EST:     CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAG                         GGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG
genomic: CGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAGgtaagtcgcc ... aattggacagGGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG

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), 48 (downstream exon)
Score: 72

CGCGAGTTGTTCGCCCGCCACCTCGCCGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAGgtaagtcgcc ... aattggacagGGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 33

CGCGAGTTGTTCGCCCGCCACCTCGCCGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAGgtaagtcgcc ... aattggacagGGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 25

CGCGAGTTGTTCGCCCGCCACCTCGCCGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAGgtaagtcgcc ... aattggacagGGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 56

CGCGAGTTGTTCGCCCGCCACCTCGCCGCCGCTGCCGCCTCGGCGTGGACCGCACCGCCGCGTCTGCCTGAACCAGgtaagtcgcc ... aattggacagGGAGGGAGCGGCGGAGCCCGGGCTGGTGGTGTCCGAGCAGGTCGTTTCATG