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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgacatgcgccctgctgccgtttctcgctccgtgaactcgatccccaactaatctcctcccctcgattggctttcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTACGCCCCGTCGCGGTTCCAGGCGCAGGCCGATGCCGTCAACCTCATATGCG

Basic information

species Zea mays
transcript GRMZM2G147671_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G147671_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g13970.1 (Oryza sativa), 3'ss of exon 1
gtacgacatgcgccctgctgccgtttctcgctccg--tgaact---cgatccccaactaatctc-------ctcccctcgattggctttcccct--gcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTACGCCCCGTCGCGGTTCCAGGCGCAGGCCGATGCCGTCAACCTCATATGCG
|| || |  ||  |  || ||| |  ||| | | |   ||  |   ||| | |  | | |  |        ||    | |  |||||  || ||  ||||||||||||||||||||||||||||||||||||||||||||||||||||||| | |||||||| |||||||| |||||||| |||||||||||||| || |
gttcgccgcgcagctcgccgccctccctcccacagatcgatttcgccgagctctgattcacttatttatcgctttttttgcgtggctcccctctccgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTACTCGCCGTCGCGATTCCAGGCTCAGGCCGACGCCGTCAACCTCATCTGTG

upper sequence: GRMZM2G147671_T02 (Zea mays), 3'ss of exon 1
lower sequence: PP1S14_318V6.2 (Physcomitrella patens), 3'ss of exon 1
--------------------------------------------------------------------------------------------------------gtacgacatgcgccctgctgccgtttctcgctccgtgaactcgatccccaactaatctcctcccctcgattggctt-----tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTACGCCCCGTCGCGGTTCCAGGCGCAGGCCGATGCCGTCAACCTCATATGCG
                                                                                                         | ||  |          ||  |   | |  | |||| | |            | |      |  | ||  |   |     |    | |||||||| ||| ||||||| |||||||| |||||||||||||||||||| ||  | ||  |  |||| || || || || |||||  | ||||| || ||||
gtaagtggaacatgggacgtagtgtattagggttatttgtaggtgcgaattggtttcttaggattcagtgatagtctgccgatcttgaatttctggtttgtttttttcgttactgagttgattgagggagcactgtgcgtgcatttttggtgggtagagttggaagctgttgaacgttatatgggtgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTATTCACCTACTAGGTTTCAAGCTCAAGCTGATGCTATAAACCTGATTTGCG

upper sequence: GRMZM2G147671_T02 (Zea mays), 3'ss of exon 1
lower sequence: PP1S14_318V6.1 (Physcomitrella patens), 3'ss of exon 1
---------gtacgacatgcgccctgctgccgtttctcgctccgtgaactcgatccccaactaatctcctcccctcgattggctt-----tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTACGCCCCGTCGCGGTTCCAGGCGCAGGCCGATGCCGTCAACCTCATATGCG
          | ||  |          ||  |   | |  | |||| | |            | |      |  | ||  |   |     |    | |||||||| ||| ||||||| |||||||| |||||||||||||||||||| ||  | ||  |  |||| || || || || |||||  | ||||| || ||||
gtttgtttttttcgttactgagttgattgagggagcactgtgcgtgcatttttggtgggtagagttggaagctgttgaacgttatatgggtgttttacagGCGACCATGGTCTGCATGGACAACTCAGAGTGGATGCGGAACGGCGATTATTCACCTACTAGGTTTCAAGCTCAAGCTGATGCTATAAACCTGATTTGCG

upper sequence: GRMZM2G147671_T02 (Zea mays), 3'ss of exon 1
lower sequence: EFJ17485 (Selaginella moellendorffii), 3'ss of exon 1
gtacgacatgcgccctgctgccgtttctcgctccgtgaactcgatccccaactaatctcctcccctcgattggctttcccctg---cagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTACGCCCCGTCGCG---GTTCCAGGCGCAGGCCGATGCCGTCAACCTCATATGCG
                                           | | ||     ||||    | |  |       ||| | ||   |||||||||||||||||||||||||| || ||||||||||| || || ||||||   ||| || |    |||||| | || || ||||| ||||| || || |   
----------------------------------------gtaagctcctcgcgatctttcacgccaggcctatcttctcttgtgccagGCGACGATGATCTGCATAGACAATTCCGAGTGGATGCGAAATGGGGACTACTATCCGACGAGTAGATTCCAGTCCCAAGCTGATGCTGTCAATCTTATCT---

upper sequence: GRMZM2G147671_T02 (Zea mays), 3'ss of exon 1
lower sequence: EFJ28815 (Selaginella moellendorffii), 3'ss of exon 1
gtacgacatgcgccctgctgccgtttctcgctccgtgaactcgatccccaactaatctcctcccctcgattggctttcccctg---cagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTACGCCCCGTCGCG---GTTCCAGGCGCAGGCCGATGCCGTCAACCTCATATGCG
                                           | | ||     ||||    | |  |       ||| | ||   |||||||||||||||||||||||||| || ||||||||||| || || ||||||   ||| || |    |||||| | || |||||||| ||||| || || |   
----------------------------------------gtaagctcctcgcgatctttcacgccaggcctatcttctcttgtgccagGCGACGATGATCTGCATAGACAATTCCGAGTGGATGCGAAATGGGGACTACTATCCGACGAGTAGATTCCAGTCCCAAGCCGATGCTGTCAATCTTATCT---

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|211069192|gb|FL190617.1|FL190617
EST:     CAAACCAGCGCAA-SYCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAG                         GCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
genomic: CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAGgtacgacatg ... tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
EST: gi|211071930|gb|FL190632.1|FL190632
EST:     CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAG                         GCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
genomic: CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAGgtacgacatg ... tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
EST: gi|31353854|gb|CD438211.1|CD438211
EST:     AAACCAGCGCAA-CCCTATAAGTGACAGCGGCGGCGACATGGGGCTCGAG                         GCGACGATGATCTGCATAGACAACTCGGAGTGGATGTC-GAACGGCGACTA
genomic: AAACCAGCGCAAGCCCT-TCCCTGACAGCGGCGGCGACATGGTGCTCGAGgtacgacatg ... tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATG-CGGAACGGCGACTA
EST: gi|211069191|gb|FL190616.1|FL190616
EST:     CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAG                         GCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
genomic: CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAGgtacgacatg ... tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
EST: gi|211071927|gb|FL190629.1|FL190629
EST:     CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAG                         GCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
genomic: CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAGgtacgacatg ... tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
EST: gi|29947654|gb|CB816768.1|CB816768
EST:     CAGCGG-GGCGACATGG-GCTCGAG                         GCGACGATGATCTGCATAGACAACTCGGAG-GGATGCGGAACGGCGACTAC
genomic: CAGCGGCGGCGACATGGTGCTCGAGgtacgacatg ... tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
EST: gi|211069188|gb|FL190613.1|FL190613
EST:     CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAG                         GCGACGATGATCTGCATAGACNACTCGGAGTGGATGCGGAACGGCGACTAC
genomic: CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAGgtacgacatg ... tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
EST: gi|5343122|gb|AI795532.1|AI795532
EST:     CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGCGCTCGAG                         GCGACGATGATCTGCATAGACAACTCTGAGTGGATGCGGAACGGCGACTAC
genomic: CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAGgtacgacatg ... tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
EST: gi|211066454|gb|FL190609.1|FL190609
EST:     CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAG                         GCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
genomic: CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAGgtacgacatg ... tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
EST: gi|67041049|gb|CO467304.1|CO467304
EST:     CCCTTCCTTGACAGCGGCGGCGACATGGTGCTCGAG                         GCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
genomic: CCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAGgtacgacatg ... tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
EST: gi|211047092|gb|FL234544.1|FL234544
EST:     CAAACCAGCGCAA-SCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAG                         GCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
genomic: CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAGgtacgacatg ... tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
EST: gi|47961624|gb|CN844333.1|CN844333
EST:     CAAACCAGCGTAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAG                         GCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
genomic: CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAGgtacgacatg ... tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
EST: gi|9824997|gb|BE575199.1|BE575199
EST:     CAAACCAGCGC-AGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAG                         GCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
genomic: CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAGgtacgacatg ... tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
EST: gi|211069187|gb|FL190612.1|FL190612
EST:     CTTCCCTGACAGCGGCGGCGACATGGTGCTCGAG                         GCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
genomic: CTTCCCTGACAGCGGCGGCGACATGGTGCTCGAGgtacgacatg ... tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
EST: gi|211069189|gb|FL190614.1|FL190614
EST:     CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAG                         GCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
genomic: CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAGgtacgacatg ... tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
EST: gi|211069197|gb|FL190622.1|FL190622
EST:     CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAG                         GCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
genomic: CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAGgtacgacatg ... tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
EST: gi|211069199|gb|FL190624.1|FL190624
EST:     CTTCCCTGACAGCGGCGGCGACATGGTGCTCGAG                         GCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
genomic: CTTCCCTGACAGCGGCGGCGACATGGTGCTCGAGgtacgacatg ... tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
EST: gi|211069196|gb|FL190621.1|FL190621
EST:     CAAACCAGCGCAA-SYCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAG                         GCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
genomic: CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAGgtacgacatg ... tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
EST: gi|32915709|gb|CF020521.1|CF020521
EST:     CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAG                         GCGACGATGATCTGCATAGACAGCTCGGAGTGGATGCGGAACGGCGACTAC
genomic: CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAGgtacgacatg ... tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
EST: gi|211069190|gb|FL190615.1|FL190615
EST:     CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAG                         GCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
genomic: CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAGgtacgacatg ... tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
EST: gi|31360558|gb|CD444915.1|CD444915
EST:     CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAG                         GCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
genomic: CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAGgtacgacatg ... tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
EST: gi|211069198|gb|FL190623.1|FL190623
EST:     CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAG                         GCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
genomic: CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAGgtacgacatg ... tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
EST: gi|211069194|gb|FL190619.1|FL190619
EST:     CTTCCCTGACAGCGGCGGCGACATGGTGCTCGAG                         GCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAA-VGCGACTAC
genomic: CTTCCCTGACAGCGGCGGCGACATGGTGCTCGAGgtacgacatg ... tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
EST: gi|211069200|gb|FL190625.1|FL190625
EST:     CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAG                         GCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC
genomic: CAAACCAGCGCAAGCCCTTCCCTGACAGCGGCGGCGACATGGTGCTCGAGgtacgacatg ... tcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccgtgaactcgatccccaactaatctcctcccctcgattggctttcccctgcagGCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTACGCCCCGTCGCGGTTCCAGGCGCAGGCCGATGCCGTCAACCTCATATGCG
                  aactaat  putative branch site (score: 2)
                        tctcctcccctcgatt  CT-rich tract
                  aactaat  TA-rich tract