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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcggtattgtttatttttctaaaataaaaatagctggtgtcaacctagtgtgtaagaaattgcttggttttttaactagcctactttattggcagAGGACGAACATGATGTTGTATGGTTCTGGTTGAAAAAAGACGAGCCGCATGAGTGTCCAGTCTGCTCGCAATACTTTGTG

Basic information

species Zea mays
transcript GRMZM2G134738_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G134738_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g42650.1 (Oryza sativa), 3'ss of exon 4
gtaagtcggtattgtttatttttctaaaataaaaatagctggtgtcaacctagtgtgtaagaaattgcttggttttttaactagcctactttattggcagAGGACGAACATGATGTTGTATGGTTCTGGTTGAAAAAAGACGAGCCGCATGAGTGTCCAGTCTGCTCGCAATACTTTGTG
|| |||| || |||   | ||  || |   |||| |      || |||  || | || || |      |     ||||   |  | |  || |||  ||||||| || |||||||||||||||||||||||||||||||| || ||||||||||| |||||||| || ||||| ||||||
gtcagtcagtgttg---acttggctcagcgaaaactctaaactgccaaa-tattatgcaatactggtatcaacatttt--ttcacttctttcatttacagAGGATGAGCATGATGTTGTATGGTTCTGGTTGAAAAAAGATGAACCGCATGAGTGCCCAGTCTGTTCACAATATTTTGTG
















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|60357675|gb|DN224648.1|DN224648
EST:     TGAGTCATACTATAACAAGCGGATAGTCGGTTGTCCTGGTGGCGAGGGTG                         AGGACGAACATGATGTTGTATGGTTCTGGTTGAAAAAAGACGAGCCGCATG
genomic: TGAGTCATACTATAACAAGCGGATAGTCGGTTGTCCTGGTGGCGAGGGTGgtaagtcggt ... ttattggcagAGGACGAACATGATGTTGTATGGTTCTGGTTGAAAAAAGACGAGCCGCATG
EST: gi|211038526|gb|FL455206.1|FL455206
EST:     TGAGTCATACTATAACAAGCGGATAGTCGGTTGTCCTGGTGGCGAGGGTG                         AGGACGAACATGATGTTGTATGGTTCTGGTTGAAAAAASMCGASCCGCATG
genomic: TGAGTCATACTATAACAAGCGGATAGTCGGTTGTCCTGGTGGCGAGGGTGgtaagtcggt ... ttattggcagAGGACGAACATGATGTTGTATGGTTCTGGTTGAAAAAAGACGAGCCGCATG
EST: gi|76288217|gb|DV027785.1|DV027785
EST:     TGAGTCATACTATAACAAGCGGATAGTCGGTTGTCCTGGTGGCGAGGGTG                         AGGACGAACATGATGTTGTATGGTTCTGGTTGAAAAAAGACGAGCCGCATG
genomic: TGAGTCATACTATAACAAGCGGATAGTCGGTTGTCCTGGTGGCGAGGGTGgtaagtcggt ... ttattggcagAGGACGAACATGATGTTGTATGGTTCTGGTTGAAAAAAGACGAGCCGCATG
EST: gi|28985245|gb|BQ538397.2|BQ538397
EST:     TGAGTCATACTATAACAAGCGGATAGTCGGTTGTCCTGGTGGCGAGGGTG                         AGGACGAACATGATGTTGTATGGTTCTGGTTGAAAAAAGACGAGCCGCATG
genomic: TGAGTCATACTATAACAAGCGGATAGTCGGTTGTCCTGGTGGCGAGGGTGgtaagtcggt ... ttattggcagAGGACGAACATGATGTTGTATGGTTCTGGTTGAAAAAAGACGAGCCGCATG
EST: gi|18173629|gb|BM349017.1|BM349017
EST:     TGAGTCATACTATAACAAGCGGATAGTCGGTTGTCCTGGTGGCGAGGGTG                         AGGACGAACATGATGTTGTATGGTTCTGGTTGAAAAAAGACGAGCCGCATG
genomic: TGAGTCATACTATAACAAGCGGATAGTCGGTTGTCCTGGTGGCGAGGGTGgtaagtcggt ... ttattggcagAGGACGAACATGATGTTGTATGGTTCTGGTTGAAAAAAGACGAGCCGCATG
EST: gi|18450528|gb|BM428806.1|BM428806
EST:     CTCAGAGGACAAGCCGGCGAGGGTGGAGGACGTCATGCCCATCGCCACGGGGCTCGAGCGGGAGGAGCTAGAGGCCGAGCTCCAG
genomic: CTCAGAGGACAAGCCGGCGAGGGTGGAGGACGTCATGCCCATCGCCACGGGGCTCGAGCGGGAGGAGCTAGAGGCCGAGCTCCAG
EST: gi|37382992|gb|CF628470.1|CF628470
EST:     CTCAGAGGACAAGCCGGCGAGGGTGGAGGACGTCATGCCCATCGCCACGGGGCTCGAGCGGGAGGAGCTAGAGGCCGAGCTCCAG
genomic: CTCAGAGGACAAGCCGGCGAGGGTGGAGGACGTCATGCCCATCGCCACGGGGCTCGAGCGGGAGGAGCTAGAGGCCGAGCTCCAG
EST: gi|18649503|gb|BM498322.1|BM498322
EST:     CTCAGAGGACAAGCCGGCGAGGGTGGAGGACGTCATGCCCATCGCCACGGGGCTCGAGCGGGAGGAGCTAGAGGCCGAGCTCCAG
genomic: CTCAGAGGACAAGCCGGCGAGGGTGGAGGACGTCATGCCCATCGCCACGGGGCTCGAGCGGGAGGAGCTAGAGGCCGAGCTCCAG
EST: gi|29130310|gb|CB381014.1|CB381014
EST:     TGAGTCATACTATAACAAGCGGATAGTCGGTTGTCCTGGTGGCGAGGGTG                         AGGACGAACATGATG
genomic: TGAGTCATACTATAACAAGCGGATAGTCGGTTGTCCTGGTGGCGAGGGTGgtaagtcggt ... ttattggcagAGGACGAACATGATG
EST: gi|18450555|gb|BM428833.1|BM428833
EST:     CTCAGAGGACAAGCCGGCGAGGGTGGAGGACGTCATGCCCATCGCCACGGGGCTCGAGCGGGAGGAGCTAGAGGCCGAGCTCCCAG
genomic: CTCAGAGGACAAGCCGGCGAGGGTGGAGGACGTCATGCCCATCGCCACGGGGCTCGAGCGGGAGGAGCTAGAGGCCGAGCT-CCAG
EST: gi|161588036|gb|EY962533.1|EY962533
EST:     TGAGTCATACTATAACAAGCGGATAGTCGGTTGTCCTGGTGGCGAGGGTG                         AGGACGAACATGA
genomic: TGAGTCATACTATAACAAGCGGATAGTCGGTTGTCCTGGTGGCGAGGGTGgtaagtcggt ... ttattggcagAGGACGAACATGA
EST: gi|60352341|gb|DN219314.1|DN219314
EST:     CAGAGGACAAGCCGGCGAGGGTGGAGGACGTCATGCCCATCGCCACGGGGCTCGAGCGGGAGGAGCTAGAGGCCGAGCTCCAG
genomic: CAGAGGACAAGCCGGCGAGGGTGGAGGACGTCATGCCCATCGCCACGGGGCTCGAGCGGGAGGAGCTAGAGGCCGAGCTCCAG
EST: gi|60340144|gb|DN207117.1|DN207117
EST:     TGAGTCATACTATAACAAGCGGATAGTCGGTTGTCCTGGTGGCGAGGGTG                         AGGACGAACATGATGTTGTATGGTTCTGGTTGAAAAAAGACGAGCCGCATG
genomic: TGAGTCATACTATAACAAGCGGATAGTCGGTTGTCCTGGTGGCGAGGGTGgtaagtcggt ... ttattggcagAGGACGAACATGATGTTGTATGGTTCTGGTTGAAAAAAGACGAGCCGCATG
EST: gi|24770192|gb|CA405321.1|CA405321
EST:     TGAGTCATACTATAACAAGCGGATAGTCGGTTGTCCTGGTGGCGAGGGTG                         AGGACGAACATGATGTTGTATGGTTCTGGTTGAAAAAAGACGAGCCGCATG
genomic: TGAGTCATACTATAACAAGCGGATAGTCGGTTGTCCTGGTGGCGAGGGTGgtaagtcggt ... ttattggcagAGGACGAACATGATGTTGTATGGTTCTGGTTGAAAAAAGACGAGCCGCATG
EST: gi|76288216|gb|DV027784.1|DV027784
EST:     TGAGTCATACTATAACAAGCGGATAGTCGGTTGTCCTGGTGGGGAGGGTG                         AGGACGAACATGATGTTGTATGGTTCTGGTTGAAAAAAGACGAGCCGCATG
genomic: TGAGTCATACTATAACAAGCGGATAGTCGGTTGTCCTGGTGGCGAGGGTGgtaagtcggt ... ttattggcagAGGACGAACATGATGTTGTATGGTTCTGGTTGAAAAAAGACGAGCCGCATG
EST: gi|60348157|gb|DN215130.1|DN215130
EST:     TGAGTCATACTATAACAAGCGGATAGTCGGTTGTCCTGGTGGCGAGGGTG                         AGGACGAACATGATGTTGTATGGTTCTGGTTGAAAAAAGACGAGCCGCATG
genomic: TGAGTCATACTATAACAAGCGGATAGTCGGTTGTCCTGGTGGCGAGGGTGgtaagtcggt ... ttattggcagAGGACGAACATGATGTTGTATGGTTCTGGTTGAAAAAAGACGAGCCGCATG
EST: gi|31354094|gb|CD438451.1|CD438451
EST:     CTCAGAGGACAAGCCGGCGAGGGTGGAGGACGTCATGCCCATCGCCACGGGGCTCGAGCGGGAGGAGCTAGAGGCCGAGCTCCAG
genomic: CTCAGAGGACAAGCCGGCGAGGGTGGAGGACGTCATGCCCATCGCCACGGGGCTCGAGCGGGAGGAGCTAGAGGCCGAGCTCCAG
EST: gi|21759837|gb|BQ635378.1|BQ635378
EST:     CGGATAGTCGGTTGTCCTGGTGGCGAGGGTG                         AGGACGAACATGATGTTGTATGGTTCTGGTTGAAAAAAGACGAGCCGCATG
genomic: CGGATAGTCGGTTGTCCTGGTGGCGAGGGTGgtaagtcggt ... ttattggcagAGGACGAACATGATGTTGTATGGTTCTGGTTGAAAAAAGACGAGCCGCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caacctagtgtgtaagaaattgcttggttttttaactagcctactttattggcagAGGACGAACATGATGTTGTATGGTTCTGGTTGAAAAAAGACGAGCCGCATGAGTGTCCAGTCTGCTCGCAATACTTTGTG
                             ttttaac  putative branch site (score: 2)
                                       cctacttt  putative PPT
                           ttttttaacta  TA-rich tract