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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaataaccaattaattctcttgaacccatcttctccgaaggtaatcatctgtaacgaaatataattgacatgcgcaaccaatctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAG

Basic information

species Zea mays
transcript GRMZM5G836250_T03
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G836250_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g64660.1 (Oryza sativa), 3'ss of exon 6
gtaataaccaattaattctcttgaacccatcttctccgaaggtaatcatctgtaacgaaatataattgacatgcgcaaccaatctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAG
    ||| | |    | ||  |  | || |  |||   || || || ||    | |  |||||||      || | ||| ||| |||||||||| |||||||| ||||||| |||||||||||||||||| || || || || || |||||||||||| |||| |||||||||||||||
---gtaatcgacc--tcctaatccatcc-tactctataaatgtcataattctcacctgaatataacc----tgtgtaactaatttgatgcagCTTGTTCTGAGTACTGGAAATGGTGTCAATGGCTTCACACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAG

upper sequence: GRMZM5G836250_T02 (Zea mays), 3'ss of exon 5
lower sequence: Vv18s0072g00770.t01 (Vitis vinifera), 3'ss of exon 6
---gtaataaccaattaattctcttgaacccatcttctccgaa---ggtaat-catctgtaacgaaatataattgacatgcgcaaccaatctgat-gcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAG
   | | |    | ||   ||| ||   |   | || |   ||   |||| | ||| | |         |   | |  |  |||    |  |  | |||||| ||  | ||||||||||||||||| ||||| || || || || || |||||||||||||||||||| || || ||| |||| |||
tctgcagtctagacttccatctttttctctggtgttgtattaatttggtactgcatttattttaggtgttgccttaattttgcattacacttatttgcagCTTGTGTTAAGCACTGGAACTGGTGTTAATGGATTTACCCTTGATCCATCACTTGGGGAGTTCATACTTACTCACCCAAACATTAAG

upper sequence: GRMZM5G836250_T02 (Zea mays), 3'ss of exon 5
lower sequence: PP1S385_43V6.1 (Physcomitrella patens), 3'ss of exon 6
-----gtaataaccaat-taattctcttgaacccatcttctccgaaggtaatcatctgtaacgaaatataattgacatgcgcaaccaatctga--tgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAG
      || | | | || | ||    ||    ||| ||  || |  ||   | |   ||       || | |     |    |     ||||   ||||| | || |||||||| ||  |||| || ||||||||||| ||||| ||||||||||||||||||||  | || || || |||||||||
tttgcctagtcatccatcttatcgaatttgcaccagctaatctggtggaggttagtagtgcttgcctagagtctcagtaacaaggttgtctgtattgcagTTGGTACTGAGCACAGGTGCTGGGGTTAATGGCTTCACCCTCGATCCTTCACTTGGGGAGTTCATCTTGACGCACCCTGACATCAAG

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|78105896|gb|DV524314.1|DV524314
EST:     GCAAGAACATGCTCGCCGCGGGATACTGCATGTACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
genomic: GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
EST: gi|149064613|gb|EE286484.2|EE286484
EST:     GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
genomic: GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
EST: gi|149085230|gb|EE174737.2|EE174737
EST:     GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
genomic: GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
EST: gi|149056940|gb|EE156494.2|EE156494
EST:     GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
genomic: GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
EST: gi|89759141|gb|DY688054.1|DY688054
EST:     GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
genomic: GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
EST: gi|83279121|gb|DV943129.1|DV943129
EST:     GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
genomic: GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
EST: gi|50327741|gb|CO522867.1|CO522867
EST:     GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
genomic: GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
EST: gi|89759142|gb|DY688055.1|DY688055
EST:     GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
genomic: GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
EST: gi|211007786|gb|FL012051.1|FL012051
EST:     GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGGTGTCA-TGGCTTCACG
genomic: GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGG-TGTCAATGGCTTCACG
EST: gi|149088446|gb|EE177549.2|EE177549
EST:     GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
genomic: GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
EST: gi|71768088|gb|DR966025.1|DR966025
EST:     GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCCTCA
genomic: GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
EST: gi|149095912|gb|EE181574.2|EE181574
EST:     GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
genomic: GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
EST: gi|32838746|gb|CD978427.1|CD978427
EST:     ACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
genomic: ACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
EST: gi|148983226|gb|EE029190.2|EE029190
EST:     NCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTT
genomic: GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTT
EST: gi|71768089|gb|DR966026.1|DR966026
EST:     GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCCTCA
genomic: GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
EST: gi|71770843|gb|DR968780.1|DR968780
EST:     GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
genomic: GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
EST: gi|149085229|gb|EE174736.2|EE174736
EST:     GCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
genomic: GCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
EST: gi|148932776|gb|EE285437.2|EE285437
EST:     GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
genomic: GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
EST: gi|71317308|gb|DR795339.1|DR795339
EST:     GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACT
genomic: GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACT
EST: gi|211005021|gb|FL012048.1|FL012048
EST:     GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTC
genomic: GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTC
EST: gi|148929799|gb|EE285436.2|EE285436
EST:     AAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
genomic: AAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
EST: gi|32920564|gb|CF025376.1|CF025376
EST:     ACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
genomic: ACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
EST: gi|91055488|gb|EB165906.1|EB165906
EST:     CCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACG                         CTCGCTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
genomic: GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
EST: gi|88752752|gb|DY536893.1|DY536893
EST:     GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
genomic: GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
EST: gi|71770842|gb|DR968779.1|DR968779
EST:     ACTGCATGTACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
genomic: ACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
EST: gi|74244032|gb|DT651946.1|DT651946
EST:     GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
genomic: GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
EST: gi|94476278|gb|EB705236.1|EB705236
EST:     GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
genomic: GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
EST: gi|50332538|gb|CO527664.1|CO527664
EST:     GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
genomic: GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
EST: gi|71757120|gb|DR955057.1|DR955057
EST:     GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACG                         CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA
genomic: GCAAGAACATGCTCGCCGCCGGATACTGCATGTACGGCAGTTCCTGCACGgtaataacca ... tctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaggtaatcatctgtaacgaaatataattgacatgcgcaaccaatctgatgcagCTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAG
               taacgaaatataatt  TA-rich tract