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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGGgtatgtacctggttttctcaattctagaaaaatataaccaatgcgtagaaagttgaaagttatggtaggacatatacatactactgctttgccctaagtc...

Basic information

species Zea mays
transcript GRMZM2G107309_T01
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G107309_T05 (Zea mays), 5'ss of exon 14
lower sequence: LOC_Os07g06980.2 (Oryza sativa), 5'ss of exon 14
GTCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGGgtatgtacctgg---ttttctcaattctagaaaaatataaccaatgcgtagaaagttgaaagttatggtaggacatatacatactac-tgctttgccctaagtc-
||||| ||  ||||||| ||| ||||| | ||| ||||| ||| ||  ||| | |||| ||||||||| ||||||||||||||||| |||||  |   || | ||||||  ||| |||||||     |    | || || |  | |      |      || |     |  || |   |  || |   
GTCACACCTGCTGGATATTCTAGGATGGCGTCCATGCTAACTGCTTGTTCACAGGGAAAATTGTTGGTTATACTTGAGGGAGGgtaggtacccagatgttctatcaatttaagataaatata-----tattcaaaaggtaggcaatgcctagaaatttgatccgcttgagatgatcacctgtaggctg
















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|71449896|gb|DR830946.1|DR830946
EST:     CTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGG                         ATACAATCTCCGGTCGATATCCTCATCAGCTACTGAAGTTGTTAAG
genomic: CTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGGgtatgtacct ... tgtcctacagATACAATCTCCGGTCGATATCCTCATCAGCTACTGAAGTTGTTAAG
EST: gi|71763326|gb|DR961263.1|DR961263
EST:     CTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGG                         ATACAATCTCCGGTCGATATCCTCATCAGCTACTGAAGTTGTTAAG
genomic: CTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGGgtatgtacct ... tgtcctacagATACAATCTCCGGTCGATATCCTCATCAGCTACTGAAGTTGTTAAG
EST: gi|211183239|gb|FL432688.1|FL432688
EST:     CTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGG                         ATMCAATCTCCGGTCGATATCCTCATCAGCTACTGAAGTTGTTAAG
genomic: CTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGGgtatgtacct ... tgtcctacagATACAATCTCCGGTCGATATCCTCATCAGCTACTGAAGTTGTTAAG
EST: gi|113813387|gb|DW929798.1|DW929798
EST:     CTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGG                         ATACAATCTCCGGTCGATATCCTCATCAGCTACTGAAGTTG
genomic: CTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGGgtatgtacct ... tgtcctacagATACAATCTCCGGTCGATATCCTCATCAGCTACTGAAGTTG
EST: gi|32930071|gb|CF034883.1|CF034883
EST:     CTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGG                         ATACAATCTCCGGTCGATATCCTCATCAGCTACTGAAGTTGTTAAG
genomic: CTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGGgtatgtacct ... tgtcctacagATACAATCTCCGGTCGATATCCTCATCAGCTACTGAAGTTGTTAAG
EST: gi|211416078|gb|FK952656.1|FK952656
EST:     CTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGG                         ATACAATCTCCGGTCGATATCCTCATCAGCTACTGAAGTTGTTAAG
genomic: CTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGGgtatgtacct ... tgtcctacagATACAATCTCCGGTCGATATCCTCATCAGCTACTGAAGTTGTTAAG
EST: gi|32932636|gb|CF037448.1|CF037448
EST:     CTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGG                         ATACAATCTCCGGTCGATATCCTCATCAGCTACTGAAGTTGTTAAG
genomic: CTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGGgtatgtacct ... tgtcctacagATACAATCTCCGGTCGATATCCTCATCAGCTACTGAAGTTGTTAAG
EST: gi|71445686|gb|DR826736.1|DR826736
EST:     GTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGG                         ATACAATCTCCGGTCGATATCCTCATCAGCTACTGAAGTTGTTAAG
genomic: GTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGGgtatgtacct ... tgtcctacagATACAATCTCCGGTCGATATCCTCATCAGCTACTGAAGTTGTTAAG
EST: gi|211416079|gb|FK952657.1|FK952657
EST:     CTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGG                         ATACAATCTCCGGTCGATATCCTCATCAGCTACTG
genomic: CTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGGgtatgtacct ... tgtcctacagATACAATCTCCGGTCGATATCCTCATCAGCTACTG
EST: gi|91050278|gb|EB160696.1|EB160696
EST:     CTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGG                         ATACAATCTCCGGTCGATATCCTCATCAGCTACTGAAGTTGTTAAG
genomic: CTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGGgtatgtacct ... tgtcctacagATACAATCTCCGGTCGATATCCTCATCAGCTACTGAAGTTGTTAAG
EST: gi|32866012|gb|CF005694.1|CF005694
EST:     CTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGG                         ATACAATCTCCGGTCGATATCCTCATCAGCTACTGAAGTTGTTAAG
genomic: CTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGGgtatgtacct ... tgtcctacagATACAATCTCCGGTCGATATCCTCATCAGCTACTGAAGTTGTTAAG
EST: gi|9732030|gb|BE510782.1|BE510782
EST:     CTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGG                         ATACAATCTCCGGTCGATATCCTCATCAGCTACTGAAGTTGTTAAG
genomic: CTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGGgtatgtacct ... tgtcctacagATACAATCTCCGGTCGATATCCTCATCAGCTACTGAAGTTGTTAAG
EST: gi|32834913|gb|CD974591.1|CD974591
EST:     CTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGG                         ATACAATCTCCGGTCGATATCCTCATCAGCTACTGAAGTTGTTAAG
genomic: CTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGGgtatgtacct ... tgtcctacagATACAATCTCCGGTCGATATCCTCATCAGCTACTGAAGTTGTTAAG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCACTCCAACTGGATACTCTTGGATGACATCCCTGCTAGCTGGTTCCTCAAATGGAAGATTGTTGGTGATACTTGAGGGAGGgtatgtacctggttttctcaattctagaaaaatataaccaatgcgtagaaagttgaaagttatggtaggacatatacatactactgctttgccctaagtc

- - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA