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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttatattatattgatccattcctttcaaatgttgcacttgctatcctgataggtgtaccatttttccctctatgcaaaaaaaaaaaactattgttgcagATTGGAGCGGTTGCTAGGATTAGGCACCAGTTAGCCTATGCATCACACAGGTTCTTTGATGAGAATGGATTTCTCTATGTACATACACCAATAATAACTA

Basic information

species Zea mays
transcript GRMZM2G083836_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G083836_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g27520.2 (Oryza sativa), 3'ss of exon 1
---gttatat-tatattgatccattcctttcaaatgttgcacttgctatcctgataggtgtaccatttttccctctatgcaaaaaaaaaaaactattgttgcagATTGGAGCGGTTGCTAGGATTAGGCACCAGTTAGCCTATGCATCACACAGGTTCTTTGATGAGAATGGATTTCTCTATGTACATACACCAATAATAACTA
   |  |||| ||  ||| | || |  ||||     |   |  |  |    ||  |  | |  |||      ||||     ||      |   |||| ||||||||||| || |||||  | ||||| |||||| |||||| |||| |||||||||| |||||||||||||| ||||| ||||| || ||||||||||||||||
aatggaatatgtactttgtttcagttttttctctgttcataactcatgagatggaatattttacataacaaactctgc---aatcccttattttatt-ttgcagATTGGTGCTGTTGCGCGTATTAGACACCAGCTAGCCTGTGCAACACACAGGTTTTTTGATGAGAATGGTTTTCTTTATGTGCACACACCAATAATAACTA
















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|149083217|gb|EE172494.2|EE172494
EST:     CGCTCGAGAAGCTCAGGGACGTCGTTCATCTCCGTTCGCGCACCAACACG                         ATTGGAGCGGTTGCTAGGATTAGGCACCAGTTAGCCTATGCATCACACAGG
genomic: CGCTCGAGAAGCTCAGGGACGTCGTTCATCTCCGTTCGCGCACCAACACGgtgcgtccct ... attgttgcagATTGGAGCGGTTGCTAGGATTAGGCACCAGTTAGCCTATGCATCACACAGG
EST: gi|211302663|gb|FL025361.1|FL025361
EST:     GCTCGAGAAGCCTCAGGGACGTCGTTCATCTCCGTTCGCGCACCAACACG                         AATTGGAGCGGTTGCTAGGATTAGGCACCAGTTAGCCTATGCATCACACAG
genomic: GCTCGAGAAGC-TCAGGGACGTCGTTCATCTCCGTTCGCGCACCAACACGgtgcgtccct ... attgttgcagA-TTGGAGCGGTTGCTAGGATTAGGCACCAGTTAGCCTATGCATCACACAG
EST: gi|148930481|gb|EE285036.2|EE285036
EST:     CGCTCGAGAAGCTCAGGGACGTCGTTCATCTCCGTTCGCGCACCAACACG                         ATTGGAGCGGTTGCTAGGATTAGGCACCAGTTAGCCTATGCATCACACAGG
genomic: CGCTCGAGAAGCTCAGGGACGTCGTTCATCTCCGTTCGCGCACCAACACGgtgcgtccct ... attgttgcagATTGGAGCGGTTGCTAGGATTAGGCACCAGTTAGCCTATGCATCACACAGG
EST: gi|14191093|gb|BG833323.1|BG833323
EST:     CGCTCGAGAAGCTCAGGGACGTCGTTCATCTCCGTTCGCGCACCAACACG                         ATTGGAGCGGTTGCTAGGATTAGGCACCAGTTAGCCTATGCATCACACAGG
genomic: CGCTCGAGAAGCTCAGGGACGTCGTTCATCTCCGTTCGCGCACCAACACGgtgcgtccct ... attgttgcagATTGGAGCGGTTGCTAGGATTAGGCACCAGTTAGCCTATGCATCACACAGG
EST: gi|19770501|gb|BQ035222.1|BQ035222
EST:     CGCTCGAGAAGCTCAGGGACGTCGTTCATCTCCGTTCGCGCACCAACACG                         ATTGGAGCGGTTGCTAGGATTAGGCACCAGTTAGCCTATGCATCACACAGG
genomic: CGCTCGAGAAGCTCAGGGACGTCGTTCATCTCCGTTCGCGCACCAACACGgtgcgtccct ... attgttgcagATTGGAGCGGTTGCTAGGATTAGGCACCAGTTAGCCTATGCATCACACAGG
EST: gi|20300468|gb|BQ163411.1|BQ163411
EST:     CGCTCGAGAAGCTCAGGGACGTCGTTCATCTCCGTTCGCGCACCAACACG                         ATTGGAGCGGTTGCTAGGATTAGGCACCAGTTAGCCTATGCATCACACAGG
genomic: CGCTCGAGAAGCTCAGGGACGTCGTTCATCTCCGTTCGCGCACCAACACGgtgcgtccct ... attgttgcagATTGGAGCGGTTGCTAGGATTAGGCACCAGTTAGCCTATGCATCACACAGG
EST: gi|211302664|gb|FL025362.1|FL025362
EST:     CGCTCGAGAAGCTCAGGGACGTCGTTCATCTCCGTTCGCGCACCAACACG                         ATTGGAGCGGTTGCTAGGATTAGGCACCAGTTAGCCTATGCATCACACAGG
genomic: CGCTCGAGAAGCTCAGGGACGTCGTTCATCTCCGTTCGCGCACCAACACGgtgcgtccct ... attgttgcagATTGGAGCGGTTGCTAGGATTAGGCACCAGTTAGCCTATGCATCACACAGG
EST: gi|148983061|gb|EE028971.2|EE028971
EST:     CGCTCGAGAAGCTCAGGGACGTCGTTCATCTCCGTTCGCGCACCAACACG                         ATTGGAGCGGTTGCTAGGATTAGGCACCAGTTAGCCTATGCATCACACAGG
genomic: CGCTCGAGAAGCTCAGGGACGTCGTTCATCTCCGTTCGCGCACCAACACGgtgcgtccct ... attgttgcagATTGGAGCGGTTGCTAGGATTAGGCACCAGTTAGCCTATGCATCACACAGG
EST: gi|16816909|gb|BM056095.1|BM056095
EST:     CGCTCGAGAAGCTCAGGGACGTCGTTCATCTCCGTTCGCGCACCAACACG                         ATTGGAGCGGTTGCTAGGATTAGGCACCAGTTAGCCTATGCATCACACAGG
genomic: CGCTCGAGAAGCTCAGGGACGTCGTTCATCTCCGTTCGCGCACCAACACGgtgcgtccct ... attgttgcagATTGGAGCGGTTGCTAGGATTAGGCACCAGTTAGCCTATGCATCACACAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctgataggtgtaccatttttccctctatgcaaaaaaaaaaaactattgttgcagATTGGAGCGGTTGCTAGGATTAGGCACCAGTTAGCCTATGCATCACACAGGTTCTTTGATGAGAATGGATTTCTCTATGTACATACACCAATAATAACTA
 tcctgat  putative branch site (score: 3)
                          tatgcaaaaaaaaaaa  TA-rich tract