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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtagctgatttgatgattatactacactcgcataatgaatttgtgggaggtcttgagtaatggtttgaagcaatgtggtaacacagATAATACAGCATGTGCTTCTAGATATGCCTGGGCTTGCATTCTTCACAACATATGCACTTCTAGTGCTCTTCTGGGCAGAGATTTATTATCAG

Basic information

species Zea mays
transcript GRMZM2G174286_T03
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G174286_T03 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os10g39220.1 (Oryza sativa), 3'ss of exon 3
-------gtttgtagctgatttgatgattatactacactcgcataatgaatttgtgggaggtcttgagtaatggtttgaagcaatgtggtaacacagATAATACAGCATGTGCTTCTAGATATGCCTGGGCTTGCATTCTTCACAACATATGCACTTCTAGTGCTCTTCTGGGCAGAGATTTATTATCAG
         |||| ||| |||||||||| | | |      |||       ||  |   || |      |  |||| | ||||||| |  || | |||||| | || |||||||||||||||||||| ||||| ||||||||||| || ||||||||| | |||||||||||||| |||||||||||||||
gtttgtgaattgttgctaatttgatgatcagattgatgctgca------gttcatttaagtt-----atggtggtattaagcaatattctaccgcagATACTTCAACATGTGCTTCTAGATATGCCCGGGCTCGCATTCTTCACGACGTATGCACTTTTGGTGCTCTTCTGGGCCGAGATTTATTATCAG

upper sequence: GRMZM2G174286_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA07G28990.1 (Glycine max), 3'ss of exon 3
------------------------------------------gtttgtagctgat-ttgatgattatactacactcgcataatgaatttgtgggaggtcttgagtaatggtt-tgaagcaatgtggtaacacagATAATACAGCATGTGCTTCTAGATATGCCTGGGCTTGCATTCTTCACAACATATGCACTTCTAGTGCTCTTCTGGGCAGAGATTTATTATCAG
                                           |||| | || || || || ||| |  ||   ||  || |  |  |  |  ||     | | |  |   | || |      ||       ||||  | || ||  |  | || ||  ||||  | ||||| ||||| ||||||||||||||| | || || |||||||| |||||||||||||||
gtattggagtatagggaatgtggcatttatttttgagttattttttgaacctaatattaataatt-tgttattttctaattagaatgtgattagactcacttaatgctcactctgcatttgcttgtgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAG

upper sequence: GRMZM2G174286_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA20G01360.1 (Glycine max), 3'ss of exon 3
-----------------------------------------------------gtttgtagctgatttgatgattatactacactcgcataatgaatttgtgggaggtcttgagtaatggtttgaagcaatgtggtaacacagATAATACAGCATGTGCTTCTAGATATGCCTGGGCTTGCATTCTTCACAACATATGCACTTCTAGTGCTCTTCTGGGCAGAGATTTATTATCAG
                                                           || | | ||| | |||||  |  | |  || ||||   ||  |       |  | | |     ||        |        ||||  | || ||  |  | || ||  ||||  | ||||| ||||| ||||||||||||||| | || || |||||||| ||||||||||| |||
gtattcgagtatagggaatggaatgtaacatttaatttgagtaattttttcttaacataagattagttgtttattattttctaattacagaatgtggtta-gactcacttatactcactcactgcgtttgcttatgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTACCAG

upper sequence: GRMZM2G174286_T03 (Zea mays), 3'ss of exon 4
lower sequence: AT1G14530.1 (Arabidopsis thaliana), 3'ss of exon 3
gtttgtagctgatttgatgattatactacactcgcataatgaatttgtgggaggtcttgagtaatg---gtttgaagcaatgtggtaacacagATAATACAGCATGTGCTTCTAGATATGCCTGGGCTTGCATTCTTCACAACATATGCACTTCTAGTGCTCTTCTGGGCAGAGATTTATTATCAG
|||||  | |  | |    ||| |  |  |  | |||      | | |  ||  | |  |    ||   || |    |  | |  |     ||||  | || ||| |  | || ||||| ||  | ||||| |||||||| |||||||| ||||| || ||||| |||||||||||||| || |||
gtttggtgtttctattgatattgtgatttagcctcattgatggtctatttgaaatttctaaacttgcaagtatcgttcggt-ttttcttgtagATTCTGCAACATATCTTACTTGATATTCCAAGTCTTGCTTTCTTCACTACATATGCGCTTCTGGTTCTCTTTTGGGCAGAGATTTACTACCAG

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|67017793|gb|CO446542.1|CO446542
EST:     GGTCTGCCGTGTTCGTGCTGCGGCGGAATGTGCAACTCGTAGAGCCTGAG                         ATAATACAGCATGTGCTTCTAGATATGCCTGGGCTTGCATTCTTCACAACA
genomic: GGTCTGCCGTGTTCGTGCTGCGGCGGAATGTGCAACTCGTAGAGCCTGAGgtttgtagct ... ggtaacacagATAATACAGCATGTGCTTCTAGATATGCCTGGGCTTGCATTCTTCACAACA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataatgaatttgtgggaggtcttgagtaatggtttgaagcaatgtggtaacacagATAATACAGCATGTGCTTCTAGATATGCCTGGGCTTGCATTCTTCACAACATATGCACTTCTAGTGCTCTTCTGGGCAGAGATTTATTATCAG
                                            tggtaac  putative branch site (score: 2)
      aatttgt  TA-rich tract