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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...actatcttaatgttgcacttaaagcttcagtcttgtcctgcactagtgatttaggagggctggctgcactatcttatggatactttgctgaattcaatagGCATTTATCAAGGAGGTATATGGAGGGTTAGAGTAGAACTGCCAGATGCGTATCCTTACAAATCCCCATCGATTGGTTTCATCAATAAGATATATCACCC

Basic information

species Zea mays
transcript GRMZM2G150867_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G150867_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os10g31000.1 (Oryza sativa), 3'ss of exon 2
actatcttaatgttgcacttaaa-gcttcagtcttgtcctgcactagtgatttaggagggctggctgcactatcttatggatactttgctgaattcaatagGCATTTATCAAGGAGGTATATGGAGGGTTAGAGTAGAACTGCCAGATGCGTATCCTTACAAATCCCCATCGATTGGTTTCATCAATAAGATATATCACCC
   || ||          | |   |     |  | ||| ||    ||||| |  ||| |    | |      ||| ||| ||  |||||| ||||    ||| ||||||||||| ||| | |||| ||||||||||||| |||| ||||| |||||||||||||| || |||||||||||| | || ||||| ||||| ||
tgaattttgcctgcttgttcagttgaccaggagtagtcttgtttcagtgactggggaagagaagatatggagtctgatgaatg-tttgcttaatttggcagGTATTTATCAAGGTGGTGTCTGGAAGGTTAGAGTAGAATTGCCTGATGCATATCCTTACAAATCTCCGTCGATTGGTTTCGTTAACAAGATTTATCATCC

upper sequence: GRMZM2G150867_T03 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA18G46940.1 (Glycine max), 3'ss of exon 2
----actatcttaatgttgcacttaaagcttcagtcttgtcctgcactagtgatttaggagggctggctgcactatcttatggatactttgctgaattcaatagGCATTTATCAAGGAGGTATATGGAGGGTTAGAGTAGAACTGCCAGATGCGTATCCTTACAAATCCCCATCGATTGGTTTCATCAATAAGATATATCACCC-
     || | || || |     | ||   ||| || |  |  | |  |  |  || |  ||   |   |   |  | | |||| |  || |||   ||    |||   |||||| || ||| | ||||  || ||||| ||  |||| ||||| |||||||||||||| || || ||||| || ||||| ||||| |||||||| 
ttgtcctgttttgatatccttttcaatatttctgtatcatg-taccttcctttttcaatagtatttttttatccgtttgatggct-tttggct---tttggcaggTCCTTATCATGGTGGTGTGTGGAAAGTAAGAGTTGAGTTGCCGGATGCTTATCCTTACAAATCTCCTTCCATTGGCTTTATCAACAAGATCTATCACCCA

upper sequence: GRMZM2G150867_T03 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA07G07540.3 (Glycine max), 3'ss of exon 1
actatctta--atgttgcacttaaagcttcagtcttgtcctgcactagtgatttaggagggctggctgcactatcttatggatactt-tgctgaattca-atagGCATTTATCAAGGAGGTATATGGAGGGTTAGAGTAGAACTGCCAGATGCGTATCCTTACAAATCCCCATCGATTGGTTTCATCAATAAGATATATCACCC
 ||    ||  |||||    ||   |       ||  | ||||| ||  ||  |   | |  |   || |   | || |  || ||| || ||  | |    |||   |||||| |||||| | ||||  || || || || ||||||||||| |||||||| ||||| || || || || || ||||||||||| ||||||||
-ctgagatagaatgttttggtttgggaaaggtgctgttactgcattatggaccttaaatgttt---tgaatcttgtttttcatccttgtgatggttccttgcagGTCCTTATCATGGAGGTGTGTGGAAAGTGAGGGTTGAGCTGCCAGATGCTTATCCTTATAAATCTCCTTCCATAGGCTTTATCAATAAGATCTATCACCC

upper sequence: GRMZM2G150867_T03 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA16G03940.2 (Glycine max), 3'ss of exon 2
-actatcttaatgttgcacttaaagcttcagtcttgtcctgcactagtgatttaggagggctggctgcactatcttatggatactt-tgctgaattca-atagGCATTTATCAAGGAGGTATATGGAGGGTTAGAGTAGAACTGCCAGATGCGTATCCTTACAAATCCCCATCGATTGGTTTCATCAATAAGATATATCACCC
       | ||||||    ||   |       ||  | ||| | ||  ||  |   | |  |    | |   |||| |  || ||| || ||  | |    |||   |||||| |||||| ||||||  || ||||| || ||||||||||| |||||||| ||||| || || || || || ||||||||||| ||||||||
ctgagattgaatgttttggtttgggaaaggtgctgttactgtattatggaccttaaatgttta---gaatcttctttttcatccttgtgatggttgcttgcagGTCCTTATCATGGAGGTGTATGGAAAGTAAGAGTTGAGCTGCCAGATGCTTATCCTTATAAATCTCCTTCCATAGGCTTTATCAATAAGATCTATCACCC

upper sequence: GRMZM2G150867_T03 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA09G39370.1 (Glycine max), 3'ss of exon 1
--actatcttaatgttgcacttaaagcttcagtcttgtc-ctgcactagtgatttaggagggctggctgcactatcttatggatactttgctgaattcaatagGCATTTATCAAGGAGGTATATGGAGGGTTAGAGTAGAACTGCCAGATGCGTATCCTTACAAATCCCCATCGATTGGTTTCATCAATAAGATATATCACCC
    | | ||  |  ||   | | | ||| |    | |  ||| | ||   |  |             |   | | ||||   |  ||    |  ||    |||   |||||| || ||| | ||||  || ||||| ||  |||| ||||| |||||||||||||| || || ||||| || ||||| ||||| ||||||||
ttgttgttttg-tcctgttttgagatctttatcaatatttctgtattatgcaccttcctttttcaatagtctttttttatc--tgtttgatggcttttggcagGTCCTTATCATGGTGGTGTGTGGAAAGTAAGAGTTGAGTTGCCGGATGCTTATCCTTACAAATCTCCTTCCATTGGATTTATCAACAAGATCTATCACCC

upper sequence: GRMZM2G150867_T03 (Zea mays), 3'ss of exon 1
lower sequence: AT5G41340.1 (Arabidopsis thaliana), 3'ss of exon 2
actatcttaatgttgcacttaaagcttcagtcttgtcctgcactagtgatttaggagggctg--gctgcactatc--ttatggatactttgc-tgaatt--caatagGCATTTATCAAGGAGGTATATGGAGGGTTAGAGTAGAACTGCCAGATGCGTATCCTTACAAATCCCCATCGATTGGTTTCATCAATAAGATATATCACCC
      |    | | |     ||| |    |    | ||    |  |  ||  | ||  |||  | |  |||||   || ||| |    ||  ||  ||    |||||  | |||||||||||| | |||| | | ||||| || || |||||||| |||||||| ||||| |||||  |||||||||| | ||| || ||||| ||
------taggcgcttcggc-gaagttcggttgggatactcgggtgttagttgtgaagaactgttgttaaactattatttgtgggtttaatgtgtgtgttggtgatagGTCTCTATCAAGGAGGTGTGTGGAAGATAAGAGTTGAGCTTCCAGATGCTTATCCTTATAAATCTCCATCTGTTGGTTTCATTACTAAAATTTATCATCC

upper sequence: GRMZM2G150867_T03 (Zea mays), 3'ss of exon 1
lower sequence: Vv15s0046g02280.t01 (Vitis vinifera), 3'ss of exon 2
actatcttaatgttgcacttaaagcttcagtcttgtcctgcactagtgatttagg---agggctggctgcactatcttatggatactttgctgaatt-caatagGCATTTATCAAGGAGGTATATGGAGGGTTAGAGTAGAACTGCCAGATGCGTATCCTTACAAATCCCCATCGATTGGTTTCATCAATAAGATATATCACCC
   |||||||||    |||| |  | | |  | |          ||    ||| |   | |  ||            | |       ||| || ||      |||   |||||| |||||| | |||||| ||||||| || || |||||||| |||||||||||||| || || ||||| ||  | |||||||| || |||||
ttgatcttaatg----actttagccattatacctagtagatttcagatggttatgtctaagtttgaaaaaggagaactttacccctgttgatggatcatggcagGTCCTTATCATGGAGGTGTTTGGAGGATTAGAGTTGAGCTTCCAGATGCTTATCCTTACAAATCTCCCTCAATTGGCTTTGTTAATAAGATCTACCACCC

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|6056913|gb|AW091318.1|AW091318
EST:     GAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAA                         GCATTTATCAAGGAGGTATATGGAGGGTTAGAGTAGAACTGCCAGATGCGT
genomic: GAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAAgtacggtttt ... aattcaatagGCATTTATCAAGGAGGTATATGGAGGGTTAGAGTAGAACTGCCAGATGCGT
EST: gi|211541018|gb|FL000893.1|FL000893
EST:     GAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAA                         GCATTTATCAAGGAGGTATATGGAGGGTTAGAGTAGAACTGCCAGATGCGT
genomic: GAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAAgtacggtttt ... aattcaatagGCATTTATCAAGGAGGTATATGGAGGGTTAGAGTAGAACTGCCAGATGCGT
EST: gi|211427763|gb|FL233521.1|FL233521
EST:     GAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAA                         GCATTTATCAAGGAGGTATATGGAGGGTTAGAGTAGAACTGCCAGATGCGT
genomic: GAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAAgtacggtttt ... aattcaatagGCATTTATCAAGGAGGTATATGGAGGGTTAGAGTAGAACTGCCAGATGCGT
EST: gi|37394410|gb|CF634479.1|CF634479
EST:     GAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAA                         GCATTTATCAAGGAGGTATATGGAGGGTTAGAGTAGAACTGCCAGATGCGT
genomic: GAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAAgtacggtttt ... aattcaatagGCATTTATCAAGGAGGTATATGGAGGGTTAGAGTAGAACTGCCAGATGCGT
EST: gi|12971358|gb|BG267442.1|BG267442
EST:     TTGAATTTCGTGGGCCTAACGAAA                         GCATTTATCAAGGAGGTATATGGAGGGTTAGAGTAGAACTGCCAGATGCGT
genomic: TTGAATTTCGTGGGCCTAACGAAAgtacggtttt ... aattcaatagGCATTTATCAAGGAGGTATATGGAGGGTTAGAGTAGAACTGCCAGATGCGT
EST: gi|84980137|gb|DW530486.1|DW530486
EST:     GAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAA                         GCATTTATCAAGGAGGTATATGGAGGGTTAGAGTAGAACTGCCAGATGCGT
genomic: GAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAAgtacggtttt ... aattcaatagGCATTTATCAAGGAGGTATATGGAGGGTTAGAGTAGAACTGCCAGATGCGT
EST: gi|32911041|gb|CF015853.1|CF015853
EST:     GAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAA                         GCATTTATCAAGGAGGTATATGGAGGGTTAGAGTAGAACTGCCAGATGCGT
genomic: GAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAAgtacggtttt ... aattcaatagGCATTTATCAAGGAGGTATATGGAGGGTTAGAGTAGAACTGCCAGATGCGT
EST: gi|5455873|gb|AI833563.1|AI833563
EST:     GAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAA                         GCATTTATCAAGGAGGTATATGGAGGGTTAGAGTAGAACTGCCAGATGCGT
genomic: GAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAAgtacggtttt ... aattcaatagGCATTTATCAAGGAGGTATATGGAGGGTTAGAGTAGAACTGCCAGATGCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgatttaggagggctggctgcactatcttatggatactttgctgaattcaatagGCATTTATCAAGGAGGTATATGGAGGGTTAGAGTAGAACTGCCAGATGCGTATCCTTACAAATCCCCATCGATTGGTTTCATCAATAAGATATATCACCC
                                             aattcaata  TA-rich tract