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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTTCTGTCCGCGCCACCGCTCCTCGACCCCCGCCCAACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcctctcatcgattccattacctcgtctgttggttcattaccaatgcttcttctaacgtgatttccatcccttcctccgttcgcag

Basic information

species Zea mays
transcript GRMZM2G171484_T01
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|60339885|gb|DN206858.1|DN206858
EST:     CAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: CAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|67035082|gb|CO463615.1|CO463615
EST:     ACACTCCCAGCCGCCACG-C--CGCCGCCGCGAGTCCTTCATTCACCTTG                         ATCCTCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|28930975|gb|CB334336.1|CB334336
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|28873901|gb|CB329830.1|CB329830
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|211053106|gb|FL123922.1|FL123922
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|211056047|gb|FL123934.1|FL123934
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|18384945|gb|BM418144.1|BM418144
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|193503176|gb|AM937588.1|AM937588
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|76921190|gb|DV168486.1|DV168486
EST:     TCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: TCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|14203665|gb|BG837342.1|BG837342
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|211056057|gb|FL123944.1|FL123944
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|211053113|gb|FL123929.1|FL123929
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|67030453|gb|CO459202.1|CO459202
EST:     CGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: CGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|211053108|gb|FL123924.1|FL123924
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|32914955|gb|CF019767.1|CF019767
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|14701474|gb|BI233892.1|BI233892
EST:     CGCGAGTCCTTCATTCACCATG                         ATCATCT-CAAGAAGAACC-CCGCGAGATCTGCAAGTACATCTTCCATG
genomic: CGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|87298799|gb|DY470802.1|DY470802
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|67017230|gb|CO445979.1|CO445979
EST:     CCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: CCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|211053115|gb|FL123931.1|FL123931
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTYCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|32914944|gb|CF019756.1|CF019756
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|211053110|gb|FL123926.1|FL123926
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|211056056|gb|FL123943.1|FL123943
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|211056051|gb|FL123938.1|FL123938
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|16745968|gb|BM032398.1|BM032398
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|22489259|gb|BU049182.1|BU049182
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|31355636|gb|CD439993.1|CD439993
EST:     CACTCCCAGCCGTCAC-CTCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: CACTCCCAGCCGTCACGC-CGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|211053117|gb|FL123933.1|FL123933
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|211056058|gb|FL123945.1|FL123945
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGSGAGTYCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|211053111|gb|FL123927.1|FL123927
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|211056054|gb|FL123941.1|FL123941
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGT-NTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|32863602|gb|CF003284.1|CF003284
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|211053114|gb|FL123930.1|FL123930
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|211056053|gb|FL123940.1|FL123940
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|76011994|gb|DT939164.1|DT939164
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|18384613|gb|BM417812.1|BM417812
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|18384615|gb|BM417814.1|BM417814
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCNCCATG                         ATCATCTCCAAGAAGANCCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|211056050|gb|FL123937.1|FL123937
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|31356366|gb|CD440723.1|CD440723
EST:     CCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACTTTG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: CCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
EST: gi|211056049|gb|FL123936.1|FL123936
EST:     ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGYCTTTCATTCACCATG                         ATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG
genomic: ACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG

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: 200

GTTTTCTGTCCGCGCCACCGCTCCTCGACCCCCGCCCAACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 224

GTTTTCTGTCCGCGCCACCGCTCCTCGACCCCCGCCCAACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 125

GTTTTCTGTCCGCGCCACCGCTCCTCGACCCCCGCCCAACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 140

GTTTTCTGTCCGCGCCACCGCTCCTCGACCCCCGCCCAACACTCCCAGCCGTCACGCCGTCGCCGCCGCGAGTCCTTCATTCACCATGgtgagcgcct ... ccgttcgcagATCATCTCCAAGAAGAACCGCCGCGAGATCTGCAAGTACATCTTCCATG