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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttggtcacaagcgattgatgcggctgtttgactttattttcatcgtggattccatgactctggttgtaataacatttgtctttatatttcttttgcagCGACAAGCTGTTGCAGAGGGTGCTGATGACGACGAGGAAGACCTAGAAGAGATCAGGGCACGGCTTGCTAAAGTGAGGTCGTAAATCATATACATATCTG

Basic information

species Zea mays
transcript GRMZM2G165195_T03
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G165195_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os07g29630.1 (Oryza sativa), 3'ss of exon 5
gtttggtcacaagcgattg-atgcggctgtttgactttattttcatcgtggattccatgactctggttgt-aataacatttgtctttatatttct--tttgcagCGACAAGCTGTTGCAGAGGGTGCTGATGACGACGAGGAAGACCTAGAAGAGATCAGGGCACGGCTTGCTAAAGTGAGGTCGTAAATCATATACATATCTG--
       | | ||| |||  ||  | |      |   | || | || |   |||  || | |    || | || | || || | ||| | |||||  |||| |||||||||||||||| ||||| |||||||| || |||||||| || ||||||||||| ||||||||||||||||||||||| |||  |||    |  |  |  
----aaactccagcaattttatctgacaaaaatatccttttgttatggaccattttattatttaaattattaagagcaattatgtttctttttctattttgtagCGACAAGCTGTTGCTGAGGGCGCTGATGATGATGAGGAAGATCTGGAAGAGATCAGAGCACGGCTTGCTAAAGTGAGGTCATAA--CATTCTAACTTTGGGA
















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|211495219|gb|FL000399.1|FL000399
EST:     CCAGAACACAGAAGATACATGAGGCTTCAACAAGCAGGGTTCCAGAAGAG                         CGACAAGCTGTTGCAGAGGGTGCTGATGACGACGAGGAAGACCTAGAAGAG
genomic: CCAGAACACAGAAGATACATGAGGCTTCAACAAGCAGGGTTCCAGAAGAAgtaactaact ... tcttttgcagCGACAAGCTGTTGCAGAGGGTGCTGATGACGACGAGGAAGACCTAGAAGAG
EST: gi|76010550|gb|DT937720.1|DT937720
EST:     CCAGAACACAGAAGATACATGAGGCTTCAACAAGCAGGGTTCCAGAAGAA                         CGACAAGCTGTTGCAGAGGGTGCTGATGACGACGAGGAAGACCTAGAAGAG
genomic: CCAGAACACAGAAGATACATGAGGCTTCAACAAGCAGGGTTCCAGAAGAAgtaactaact ... tcttttgcagCGACAAGCTGTTGCAGAGGGTGCTGATGACGACGAGGAAGACCTAGAAGAG
EST: gi|211298305|gb|FL473376.1|FL473376
EST:     CCAGAACACAGAAGATACATGAGGCTTCAACAAGCAGGGTTCCAGAAGAA                         CGACAAGCTGTTGCAGAGGGTGCTGATGACGACGAGGAAGACCTAGAAGAG
genomic: CCAGAACACAGAAGATACATGAGGCTTCAACAAGCAGGGTTCCAGAAGAAgtaactaact ... tcttttgcagCGACAAGCTGTTGCAGAGGGTGCTGATGACGACGAGGAAGACCTAGAAGAG
EST: gi|13558970|gb|BG550325.1|BG550325
EST:     CCAGAACACAGAAGATACATGAGGCTTCAACAAGCAGGGTTCCAGAAGAA                         CGACAAGCTGTTGCAGAGGGTGCTGATGACGACGAGGAAGACCTAGAAGAG
genomic: CCAGAACACAGAAGATACATGAGGCTTCAACAAGCAGGGTTCCAGAAGAAgtaactaact ... tcttttgcagCGACAAGCTGTTGCAGAGGGTGCTGATGACGACGAGGAAGACCTAGAAGAG
EST: gi|71765371|gb|DR963308.1|DR963308
EST:     CCAGAACACAGAAGATACATGAGGCTTCAACAAGCAGGGTTCCAGAAGAA                         CGACAAGCTGTTGCAGAGGGTGCTGATGACGACGAGGAAGACCTAGAAGAG
genomic: CCAGAACACAGAAGATACATGAGGCTTCAACAAGCAGGGTTCCAGAAGAAgtaactaact ... tcttttgcagCGACAAGCTGTTGCAGAGGGTGCTGATGACGACGAGGAAGACCTAGAAGAG
EST: gi|32867970|gb|CF007652.1|CF007652
EST:     CCAGAACACAGAAGATACATGAGGCTTCAACAAGCAGGGTTCCAGAAGAG                         CGACAAGCTGTTGCTGAGGGTGCTGATGACGACGAGGAAGACCTAGAAGAG
genomic: CCAGAACACAGAAGATACATGAGGCTTCAACAAGCAGGGTTCCAGAAGAAgtaactaact ... tcttttgcagCGACAAGCTGTTGCAGAGGGTGCTGATGACGACGAGGAAGACCTAGAAGAG
EST: gi|78074982|gb|DV503416.1|DV503416
EST:     CCAGAACACAGAAGATACATGAGGCTTCAACAAGCAGGGTTCCAGAAGAA                         CGACAAGCTGTTGCAGAGGGTGCTGATGACGACGAGGAAGACCTAGAAGAG
genomic: CCAGAACACAGAAGATACATGAGGCTTCAACAAGCAGGGTTCCAGAAGAAgtaactaact ... tcttttgcagCGACAAGCTGTTGCAGAGGGTGCTGATGACGACGAGGAAGACCTAGAAGAG
EST: gi|76281952|gb|DV021520.1|DV021520
EST:     CCAGAACACAGAAGATACATGAGGCTTCAACAAGCAGGGTTCCAGAAGAA                         CGACAAGCTGTTGCAGAGGGTGCTGATGACGACGAGGAAGACCTAGAAGAG
genomic: CCAGAACACAGAAGATACATGAGGCTTCAACAAGCAGGGTTCCAGAAGAAgtaactaact ... tcttttgcagCGACAAGCTGTTGCAGAGGGTGCTGATGACGACGAGGAAGACCTAGAAGAG
EST: gi|32867969|gb|CF007651.1|CF007651
EST:     CCAGAACACAGAAGATACATGAGGCTTCAACAAGCAGGGTTCCAGAAGAG                         CGACAAGCTGTTGCTGAGGGTGCTGATGACGACGAGGAAGACCTAGAAGAG
genomic: CCAGAACACAGAAGATACATGAGGCTTCAACAAGCAGGGTTCCAGAAGAAgtaactaact ... tcttttgcagCGACAAGCTGTTGCAGAGGGTGCTGATGACGACGAGGAAGACCTAGAAGAG
EST: gi|211095886|gb|FL432128.1|FL432128
EST:     CCAGAACACAGAAGATACATGAGGCTTCAACAAGCAGGGTTCCAGAAGAA                         CGACAAGCTGTTGCAGAGGGTGCTGATGACGACGAGGAAGACCTAGAAGAG
genomic: CCAGAACACAGAAGATACATGAGGCTTCAACAAGCAGGGTTCCAGAAGAAgtaactaact ... tcttttgcagCGACAAGCTGTTGCAGAGGGTGCTGATGACGACGAGGAAGACCTAGAAGAG
EST: gi|76933730|gb|DV173563.1|DV173563
EST:     CCAGAACACAGAAGATACATGAGGCTTCAACAAGCAGGGTTCCAGAAGAA                         CGACAAGCTGTTGCAGAGGGTGCTGATGACGACGAGGAAGACCTAGAAGAG
genomic: CCAGAACACAGAAGATACATGAGGCTTCAACAAGCAGGGTTCCAGAAGAAgtaactaact ... tcttttgcagCGACAAGCTGTTGCAGAGGGTGCTGATGACGACGAGGAAGACCTAGAAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgtggattccatgactctggttgtaataacatttgtctttatatttcttttgcagCGACAAGCTGTTGCAGAGGGTGCTGATGACGACGAGGAAGACCTAGAAGAGATCAGGGCACGGCTTGCTAAAGTGAGGTCGTAAATCATATACATATCTG
                       taataac  putative branch site (score: 1)
                                   tctttatatttctttt  putative PPT
                       taataacatttgtctt  TA-rich tract