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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaatatttcaaatgctatcttttgtgttgatgccatcagtaatataaattttatttctaggactgttcactgagggtttcatatgatgtgttgaatttatgtgatgcagTACCTGGTACAATCAGCTGTTGATGGATATAACGTTTGCATATTTGCATATGGTCAAACTGGTTCTGGAAAGACTTTCACTATTTATGGTTCAGATAACA

Basic information

species Zea mays
transcript GRMZM2G423861_T02
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G423861_T02 (Zea mays), 3'ss of exon 17
lower sequence: LOC_Os04g57140.2 (Oryza sativa), 3'ss of exon 18
gtgaatatttcaaatgctatcttttgtgttgatgccatcagtaatataaattttatttctaggactgttcactga-gggtttcatatgat-gtgttgaatttatgtgatgcagTACCTGGTACAATCAGCTGTTGATGGATATAACGTTTGCATATTTGCATATGGTCAAACTGGTTCTGGAAAGACTTTCACTATTTATGGTTCAGATAACA
               |  | ||||| | |        |   ||| ||| || |  |   ||| | | ||  |    ||  | ||| || |  |  ||||||| |||||||||||| || || ||||| || |||||||||||||| ||||| |||||||| ||||| ||||||||||||||||| ||||| || |||||||| || || ||||
---------------gtgaccttttttttaacacttctttttaacatacatgtgctcattag-attatttgcaattggactccatgtgtttatcatgaattt-tgtgatgcagTATCTAGTTCAATCGGCCGTTGATGGATATAATGTTTGTATATTTGCTTATGGGCAAACTGGTTCTGGAAAAACTTTTACAATTTATGGATCTGAAAACA

upper sequence: GRMZM2G423861_T02 (Zea mays), 3'ss of exon 17
lower sequence: GLYMA01G35950.1 (Glycine max), 3'ss of exon 19
--------gtga-atatttcaaatgcta-tcttttgtgtt-gatgccat---cagtaatataaattt--tatttctaggactgttcactgagggtttcatatgatgtgttgaatttatgtgatgcagTACCTGGTACAATCAGCTGTTGATGGATATAACGTTTGCATATTTGCATATGGTCAAACTGGTTCTGGAAAGACTTTCACTATTTATGGTTCAGATAACA-------
         | | | |||  | ||  || | |||||  || |||  |||   || | | ||  ||||  ||||| |   |||  | ||  | | |||       | | ||| |  | ||  ||||||||| | || ||||| ||||| ||||| ||||| |||||||||||||| ||||||||||||||||||||||||||||| || || |||||    || ||||       
gtcttagtataacaaattatagatcatagttttttgctttagatagcatatacattgaaatggatttaatattttttatactcattaccaatgtttt-------tcttttggaaatttgcaatgcagtacttagTGCAATCTGCTGTGGATGGTTATAATGTTTGCATATTTGCTTATGGTCAAACTGGTTCTGGAAAGACTTTTACAATCTATGGAGTTGAAAACAATCCTGG

upper sequence: GRMZM2G423861_T02 (Zea mays), 3'ss of exon 17
lower sequence: GLYMA11G09480.1 (Glycine max), 3'ss of exon 19
------------gtga-atatttcaaatgcta-tcttttgtgtt-gatgccat---cagtaatataaattttatttctaggactgttcactgagggtttcatatgatgtgttgaatttatgtgatgcagTACCTGGTACAATCAGCTGTTGATGGATATAACGTTTGCATATTTGCATATGGTCAAACTGGTTCTGGAAAGACTTTCACTATTTATGGTTCAGATAACA
             | | | |||  | || ||| | |||||  || |||   ||   || | | ||| |||| || | |     |  ||| |     | |  |    | | ||| |  | ||  ||||||||| | || ||||| ||||| ||||| ||||| |||||||||||||| || ||||||||||||||||| |||||||| || || |||||  | || ||||
gcaagtcttagtataacaaattaaagatcctagttttttgctttagataatatgtacattgaaatagatttaatatttttctatactcattactaatgtttt----tcttttggacatttgcaatgcagTACTTAGTGCAATCTGCTGTAGATGGTTATAATGTTTGCATATTTGCTTACGGTCAAACTGGTTCTGGGAAGACTTTTACAATCTATGGAGCTGAAAACA

upper sequence: GRMZM2G423861_T02 (Zea mays), 3'ss of exon 17
lower sequence: GLYMA09G32740.1 (Glycine max), 3'ss of exon 19
gtgaatatttcaaatgctatcttttgtgttgatgccatcagtaatataaattt--tatttctaggactgt---tcactgagggtttcatatgatgtgttgaatttatgtgatgcagTACCTGGTACAATCAGCTGTTGATGGATATAACGTTTGCATATTTGCATATGGTCAAACTGGTTCTGGAAAGACTTTCACTATTTATGGTTCAGATAACA
             ||   |   |        | | |||   | ||||  ||||  | ||| | |||   |   | ||| |   |        || | | |    | ||  ||||||||  |||| || || ||||| ||||| ||||| |||||||||||||| |||||||||||||| ||||||||||| || || || ||||| || || ||||
-----------gtatttgaggatacaaaggcaagtcatttatcatatttatttcttgtttatgggaacatatataacttacactcattatcaatttctcgtggatttgcaatgcagTATTTGGTGCAGTCTGCTGTAGATGGTTATAATGTTTGCATATTTGCCTATGGTCAAACTGGCTCTGGAAAGACATTTACAATCTATGGATCTGACAACA

upper sequence: GRMZM2G423861_T02 (Zea mays), 3'ss of exon 17
lower sequence: GLYMA16G21340.1 (Glycine max), 3'ss of exon 22
gtgaatatttcaaatgctatcttttgtgttgatgccatcagtaatataaattttatttctaggactgttcactgagggtttcatatgatgtgttgaatttatgtgatgcagTACCTGGTACAATCAGCTGTTGATGGATATAACGTTTGCATATTTGCATATGGTCAAACTGGTTCTGGAAAGACTTTCACTATTTATGGTTCAGATAACA
             | |  ||   |||| || ||  | |   ||    ||  | |||  ||   |||  | ||  |   ||||   |  ||| ||       ||  ||||||||  |||| ||||| ||||| ||||| ||||| |||||||||||||| |||||||||||||| ||||||||||| || || || ||||| || || | ||
-----------gcaagtcataaattgtatttatttcttgcttatggaaacatatataacttacactcattaccaa---tttc---tcgtgtatt-------tgcaatgcagTATTTGGTGCAATCTGCTGTAGATGGTTATAATGTTTGCATATTTGCTTATGGTCAAACTGGATCTGGAAAGACATTTACAATCTATGGATCGGACATCA

upper sequence: GRMZM2G423861_T02 (Zea mays), 3'ss of exon 17
lower sequence: AT5G65930.3 (Arabidopsis thaliana), 3'ss of exon 16
gtgaatatttcaaatgctatcttttgtgttgatgccatcagtaatataaattttatttctaggactgttcactgagggtttcatatgatgtgttgaatttatgtgatgcagTACCTGGTACAATCAGCTGTTGATGGATATAACGTTTGCATATTTGCATATGGTCAAACTGGTTCTGGAAAGACTTTCACTATTTATGGTTCAGATAACA
                 |||  ||  | |   |  |     | || ||  ||| ||   | |   | ||  ||   |||| |  |    || ||   ||||       |||||  ||||||| || ||||| ||||| |||||||||||||| ||||||||||||||||||||||||||||| ||||||||||| |||||    || | ||
----------------gtattattgatat--gtaactgtgttcatttacctttcatcctttg--ttattttcttgtggttactaacatcgttttcctttta------acagTATTTGGTACAGTCGGCTGTAGATGGGTATAACGTTTGCATCTTTGCATATGGTCAAACTGGTTCTGGAAAAACTTTCACTATATATGGGCATGAGAGCA

upper sequence: GRMZM2G423861_T02 (Zea mays), 3'ss of exon 17
lower sequence: Vv04s0044g02020.t01 (Vitis vinifera), 3'ss of exon 18
gtgaatatttcaaat-gctatcttttgtgttgatgccatcagtaatataaattttatttctaggactgttcactgagggtttcatatgatgtgttgaatttatgtgat-gcagTACCTGGTACAATCAGCTGTTGATGGATATAACGTTTGCATATTTGCATATGGTCAAACTGGTTCTGGAAAGACTTTCACTATTTATGGTTCAGATAACA
          ||| |    ||| |   ||||       | || ||  |   ||| ||| |    | |  |   | | |   |  | |||| | ||  || | | |||| ||||||  |||| ||||| ||||| ||||||||||| || |||||||||||||||||||| ||||||||||||||||| ||||| ||||||||||| |||   |
---------gcaagtcaacatcatgaatgtt-----tgttagcaacttg--tttgattacattaattagtagttcaag---ttgtgtgatattttctatgtttatgattgcagTATTTGGTTCAATCGGCTGTAGATGGATATAATGTGTGCATATTTGCATATGGTCAGACTGGTTCTGGAAAGACATTCACAATTTATGGTTCTGATGGTA

upper sequence: GRMZM2G423861_T02 (Zea mays), 3'ss of exon 17
lower sequence: PP1S83_25V6.1 (Physcomitrella patens), 3'ss of exon 19
gtgaatatttcaaatgctatcttttgtgttgatgccatcagtaatataaattttatttctaggactgttcactgagggtttcatatgatgtgttgaatttatgtgatgcagTACCTGGTACAATCAGCTGTTGATGGATATAACGTTTGCATATTTGCATATGGTCAAACTGGTTCTGGAAAGACTTTCACTATTTATGGTTCAGATAACA
      |   | | |  |  ||  ||| ||   |   |||  ||  | | | |||||   |  | || |  |||     | |  | | |    ||||| ||     |||||||  |||| ||||||||  ||||||| || || || || || |||||||| || |||||||| || || || ||||| |||||||||||||| || || |
------acacctagttgt-cctgctgttttagggtattcaaaaacttcattgttattc--aataatgatt-ctgtattctgcgca-gctaacatgaatgtaacgtgtgcagTATTTGGTCCAATCAGCGATTGATGGGTACAATGTCTGTATTTTTGCATACGGACAAACTGGATCAGGGAAAACTTTTACTATTTATGGTTCTGAAAATA

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|18384228|gb|BM417427.1|BM417427
EST:     GTGTTTTTGATGCAAACACAAGTCAAGAAGAAATATTTGAGGATACTAAG                         TACCTGGTACAATCAGCTGTTGATGGATATAACGTTTGCATATTTGCATAT
genomic: GTGTTTTTGATGCAAACACAAGTCAAGAAGAAATATTTGAGGATACTAAGgtgaatattt ... tgtgatgcagTACCTGGTACAATCAGCTGTTGATGGATATAACGTTTGCATATTTGCATAT
EST: gi|67042488|gb|CO468743.1|CO468743
EST:     TGTTTTTGATGCAAACACAAGTCAAGAAGAAATATTNTCACGATACTAAG                         TACCTGGTACAATCAGCTGTTGATGGATATAACGTTTGCATATTTGCATAT
genomic: TGTTTTTGATGCAAACACAAGTCAAGAAGAAATATT-TGAGGATACTAAGgtgaatattt ... tgtgatgcagTACCTGGTACAATCAGCTGTTGATGGATATAACGTTTGCATATTTGCATAT
EST: gi|22489624|gb|BU049547.1|BU049547
EST:     GTGTTTTTGATGCAAACACAAGTCAAGAAGAAATATTTGAGGATACTAAG                         TACCTGGTACAATCAGCTGTTGATGGATATAACGATTTGCATATTTGCATA
genomic: GTGTTTTTGATGCAAACACAAGTCAAGAAGAAATATTTGAGGATACTAAGgtgaatattt ... tgtgatgcagTACCTGGTACAATCAGCTGTTGATGGATATAACG-TTTGCATATTTGCATA
EST: gi|211404724|gb|FL347368.1|FL347368
EST:     GTGTTTTTGATGCAAACACAAGTCAAGAAGAAATATTTGAGGATACTAAG                         TACCTGGTACAATCAGCTGTTGATGGATATAACGTTTGCATATTTGCATAT
genomic: GTGTTTTTGATGCAAACACAAGTCAAGAAGAAATATTTGAGGATACTAAGgtgaatattt ... tgtgatgcagTACCTGGTACAATCAGCTGTTGATGGATATAACGTTTGCATATTTGCATAT
EST: gi|18649770|gb|BM498589.1|BM498589
EST:     GTGTTTTTGATGCAAACACAAGTCAAGAAGAAATATTTGAGGATACTAAG                         TACCTGGTACAATCAGCTGTTGATGGATATAACGTTTGCATATTTGCATAT
genomic: GTGTTTTTGATGCAAACACAAGTCAAGAAGAAATATTTGAGGATACTAAGgtgaatattt ... tgtgatgcagTACCTGGTACAATCAGCTGTTGATGGATATAACGTTTGCATATTTGCATAT
EST: gi|22489601|gb|BU049524.1|BU049524
EST:     GTGTTTTTGATGCAAACACAAGTCAAGAAGAAATATTTGAGGATACTAAG                         TACCTGGTACAATCAGCTGTTGATGGATATAACGATAGCATATTTGCATAT
genomic: GTGTTTTTGATGCAAACACAAGTCAAGAAGAAATATTTGAGGATACTAAGgtgaatattt ... tgtgatgcagTACCTGGTACAATCAGCTGTTGATGGATATAACGTTTGCATATTTGCATAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctaggactgttcactgagggtttcatatgatgtgttgaatttatgtgatgcagTACCTGGTACAATCAGCTGTTGATGGATATAACGTTTGCATATTTGCATATGGTCAAACTGGTTCTGGAAAGACTTTCACTATTTATGGTTCAGATAACA
                                    ttgaatttat  TA-rich tract