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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtagctaagtcagctgtcctccgttccgctacctcccgttctgaagccctcaactgaaccgagtgccttgtgctttctgcagGTGAATGGAACTGCTGCTGCCTGGGATATTGGCTCCCAGAATTTGTTCAGCGGATTTGATGCACAATTTCAGTCGGTAGAAA

Basic information

species Zea mays
transcript GRMZM2G101350_T02
intron # 4
splice site 3'
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|71446020|gb|DR827070.1|DR827070
EST:     CGTCGGTCTCGGTGGCCGCCGGACCGTCGACCATCGAGCCGTGCCTCAAC                         GTGAATGGAACTGCTGCTGCCTGGGATATTGGCTCCCAGAATTTGTTCAGC
genomic: CGTCGGTCTCGGTGGCCGCCGGACCGTCGACCATCGAGCCGTGCCTCAACgtatgtagct ... ctttctgcagGTGAATGGAACTGCTGCTGCCTGGGATATTGGCTCCCAGAATTTGTTCAGC
EST: gi|78080061|gb|DV508473.1|DV508473
EST:     CGTCGGTCTCGGTGGCCGCCGGACCGTCGACCATCGAGCCGTGCCTCAAC                         GTGAATGGAACTGCTGCTGCCTGGGATATTGGCTCCCAGAATTTGTTCAGC
genomic: CGTCGGTCTCGGTGGCCGCCGGACCGTCGACCATCGAGCCGTGCCTCAACgtatgtagct ... ctttctgcagGTGAATGGAACTGCTGCTGCCTGGGATATTGGCTCCCAGAATTTGTTCAGC
EST: gi|78090318|gb|DV518692.1|DV518692
EST:     CGTCGGTCTCGGTGGCCGCCGGACCGTCGACCATCGAGCCGTGCCTCAAC                         GTGAATGGAACTGCTGCTGCCTGGGATATTGGCTCCCAGAATTTGTTCAGC
genomic: CGTCGGTCTCGGTGGCCGCCGGACCGTCGACCATCGAGCCGTGCCTCAACgtatgtagct ... ctttctgcagGTGAATGGAACTGCTGCTGCCTGGGATATTGGCTCCCAGAATTTGTTCAGC
EST: gi|60338634|gb|DN205607.1|DN205607
EST:     CGTCGGTCTCGGTGGCCGCCGGACCGTCGACCATCGAGCCGTGCCTCAAC                         GTGAATGGAACTGCTGCTGCCTGGGATATTGGCTCCCAGAATTTGTTCAGC
genomic: CGTCGGTCTCGGTGGCCGCCGGACCGTCGACCATCGAGCCGTGCCTCAACgtatgtagct ... ctttctgcagGTGAATGGAACTGCTGCTGCCTGGGATATTGGCTCCCAGAATTTGTTCAGC
EST: gi|50335489|gb|CO530615.1|CO530615
EST:     CGTCGGTCTCGGTGGCCGCCGGACCGTCGACCATCGAGCCGTGCCTCAAC                         GTGAATGGAACTGCTGCTGCCTGGGATATTGGCTCCCAGAATTTGTTCAGC
genomic: CGTCGGTCTCGGTGGCCGCCGGACCGTCGACCATCGAGCCGTGCCTCAACgtatgtagct ... ctttctgcagGTGAATGGAACTGCTGCTGCCTGGGATATTGGCTCCCAGAATTTGTTCAGC
EST: gi|78120916|gb|DV539300.1|DV539300
EST:     CGTCGGTCTCGGTGGCCGCCGGACCGTCGACCATCGAGCCGTGCCTCAAC                         GTGAATGGAACTGCTGCTGCCTGGGATATTGGCTCCCAGAATTTGTTCAGC
genomic: CGTCGGTCTCGGTGGCCGCCGGACCGTCGACCATCGAGCCGTGCCTCAACgtatgtagct ... ctttctgcagGTGAATGGAACTGCTGCTGCCTGGGATATTGGCTCCCAGAATTTGTTCAGC
EST: gi|76293816|gb|DV033384.1|DV033384
EST:     CGTCGGTCTCGGTGGCCGCCGGACCGTCGACCATCGAGCCGTGCCTCAAC                         GTGAATGGAACTGCTGCTGCCTGGGATATTGGCTCCCAGAATTTGTTCAGC
genomic: CGTCGGTCTCGGTGGCCGCCGGACCGTCGACCATCGAGCCGTGCCTCAACgtatgtagct ... ctttctgcagGTGAATGGAACTGCTGCTGCCTGGGATATTGGCTCCCAGAATTTGTTCAGC
EST: gi|71768486|gb|DR966423.1|DR966423
EST:     CGTCGGTCTCGGTGGCCGCCGGACCGTCGACCATCGAGCCGTGCCTCAAC                         GTGAATGGAACTGCTGCTGCCTGGGATATTGGCTCCCAGAATTTGTTCAGC
genomic: CGTCGGTCTCGGTGGCCGCCGGACCGTCGACCATCGAGCCGTGCCTCAACgtatgtagct ... ctttctgcagGTGAATGGAACTGCTGCTGCCTGGGATATTGGCTCCCAGAATTTGTTCAGC
EST: gi|76293282|gb|DV032850.1|DV032850
EST:     CGTCGGTCTCGGTGGCCGCCGGACCGTCGACCATCGAGCCGTGCCTCAAC                         GTGAATGGAACTGCTGCTGCCTGGGATATTGGCTCCCAGAATTTGTTCAGC
genomic: CGTCGGTCTCGGTGGCCGCCGGACCGTCGACCATCGAGCCGTGCCTCAACgtatgtagct ... ctttctgcagGTGAATGGAACTGCTGCTGCCTGGGATATTGGCTCCCAGAATTTGTTCAGC
EST: gi|71312226|gb|DR792635.1|DR792635
EST:     CGTCGGTCTCGGTGGCCGCCGGACCGTCGACCATCGAGCCGTGCCTCAAC                         GTGAATGGAACTGCTGCTGCCTGGGATATTGGCTCCCAGAATTTGTTCAGC
genomic: CGTCGGTCTCGGTGGCCGCCGGACCGTCGACCATCGAGCCGTGCCTCAACgtatgtagct ... ctttctgcagGTGAATGGAACTGCTGCTGCCTGGGATATTGGCTCCCAGAATTTGTTCAGC

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 3 RNA-Seq libraries.


Block sizes: 47 (upstream exon), 48 (downstream exon)
Score: 10

CAGCAACCTGTACGCGCCCGCCGCCGCAAGCTGCCCTGTGTCGGCTGCCCCGTCGGTCTCGGTGGCCGCCGGACCGTCGACCATCGAGCCGTGCCTCAACgtatgtagct ... ctttctgcagGTGAATGGAACTGCTGCTGCCTGGGATATTGGCTCCCAGAATTTGTTCAGCGGATTTGATGCACAATTTCAGTCGGTAGAAA


Block sizes: 40 (upstream exon), 26 (downstream exon)
Score: 4

CAGCAACCTGTACGCGCCCGCCGCCGCAAGCTGCCCTGTGTCGGCTGCCCCGTCGGTCTCGGTGGCCGCCGGACCGTCGACCATCGAGCCGTGCCTCAACgtatgtagct ... ctttctgcagGTGAATGGAACTGCTGCTGCCTGGGATATTGGCTCCCAGAATTTGTTCAGCGGATTTGATGCACAATTTCAGTCGGTAGAAA


Block sizes: 47 (upstream exon), 28 (downstream exon)
Score: 3

CAGCAACCTGTACGCGCCCGCCGCCGCAAGCTGCCCTGTGTCGGCTGCCCCGTCGGTCTCGGTGGCCGCCGGACCGTCGACCATCGAGCCGTGCCTCAACgtatgtagct ... ctttctgcagGTGAATGGAACTGCTGCTGCCTGGGATATTGGCTCCCAGAATTTGTTCAGCGGATTTGATGCACAATTTCAGTCGGTAGAAA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctacctcccgttctgaagccctcaactgaaccgagtgccttgtgctttctgcagGTGAATGGAACTGCTGCTGCCTGGGATATTGGCTCCCAGAATTTGTTCAGCGGATTTGATGCACAATTTCAGTCGGTAGAAA
                                           tgctttct  CT-rich tract