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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtattattcttaaactaatggcatacaggtgcattttagctgcagcttcaataatttattggccctttttatgtgtaaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAG

Basic information

species Zea mays
transcript GRMZM2G147671_T02
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G147671_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os03g13970.2 (Oryza sativa), 3'ss of exon 8
gtatgtattattcttaaactaatggcatacaggtgcattt-tagctgcagcttcaataatttatt--ggccctttttatgtgtaaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAG
||| |||||  | |  ||| |||| ||| |   |  ||   ||  | ||      || | | | |   ||  ||||      | ||||   |||| ||||||||||| |||||||| || ||||| |||||||||||||||||||||||  | ||||| |||
gtaagtatttgtttagaaccaatgacatgctaatctatagatattttcattgcgtatgactgactcttgctgttttcccccttcaaattgtagCTCCCTGGTGTTGACCCCAATGACCCCTCTGTGAAAGATTTGCTGGCATCATTGCATGGGCAGGGCGAG

upper sequence: GRMZM2G147671_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA02G05250.2 (Glycine max), 3'ss of exon 8
gtatgtattattcttaaactaatggcatacaggtgcattttagctgcagc--ttcaataatttattggccctttttatgtgtaaaata------------acagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAG
    ||||   | | || | | |    |     ||   ||||  || |    |  ||| ||| |       || |||  || | ||||             ||||||||||| ||||| || ||||| |||||||| |||||||||||||| ||  |||| |  |||   |||
----gtatgtctataaatccagtaaattttccatgttctttaaatgtattaatagaatgattgacaatatgttcttaactgaataatattcattgcttctgcagCTTCCTGGGGTTGACCCAAATGACCCATCTGTCAAAGATTTGCTGGCTTCCATGCAAAATCAGTCTGAG

upper sequence: GRMZM2G147671_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA16G23590.1 (Glycine max), 3'ss of exon 8
gtatgtattattcttaaactaatggcatacaggtgcattttagctgca--gcttcaataatttattggccctttttatgtgtaaaata------------acagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAG
    ||||   | | || | | |         |||   ||||  || |  | |  ||| ||| |       || |    || | ||||             ||||||||||| ||||| || |||||||||||||| |||||||||||||| || ||||| |  |||   |||
----gtatgtctataaatccagtaaatgttccgtgttctttaaatgtattgatagaatgattgacaatatgttctgcactgaataatattcgttgcttctgcagCTTCCTGGGGTTGACCCAAATGATCCATCTGTCAAAGATTTGCTGGCTTCCTTGCAAAATCAGTCTGAG

upper sequence: GRMZM2G147671_T01 (Zea mays), 3'ss of exon 8
lower sequence: Vv04s0023g03620.t01 (Vitis vinifera), 3'ss of exon 8
----------------------------------------------------------------------gtatgtattattcttaaactaatggcat-acaggtgcattttagctgcagcttcaataatttattggccctttttatgtgtaaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAG
                                                                        |   |  |      |  |      || |||| ||    |  ||||||| |   ||    |      | ||||    | |       |||||||| || ||||| ||||||||||| || || ||||||||||| |||||  |||| |   ||  ||||
gtatgtgactgaaccctcacttttccaaaaagtaaaaaggaaaaacaagcacaggcacacacacacacacacacacaagagagaggagatggaaaaatgacagatgaggatctgctgcagttagcatttcatgaaaagcattttcgattttgtg----cagCTTCCAGGAGTTGACCCCAATGATCCTTCAGTCAAAGATTTGCTAGCATCCATGCAAAATGAGTCAGAG

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|211525286|gb|FK977009.1|FK977009
EST:     TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCG                         CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
genomic: TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtatta ... aaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
EST: gi|15053742|gb|BI359287.1|BI359287
EST:     TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCG                         CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
genomic: TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtatta ... aaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
EST: gi|15053743|gb|BI359288.1|BI359288
EST:     TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCG                         CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
genomic: TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtatta ... aaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
EST: gi|32937218|gb|CF042037.1|CF042037
EST:     TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCG                         CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
genomic: TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtatta ... aaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
EST: gi|28984428|gb|BQ539033.2|BQ539033
EST:     TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCG                         CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
genomic: TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtatta ... aaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
EST: gi|9733091|gb|BE511843.1|BE511843
EST:     TGAGTAAGGTGTTTGAAGACAGAACATTTGTGTCATCTATCCTTAATTCG                         CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCN
genomic: TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtatta ... aaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATC-
EST: gi|5770174|gb|AI973348.1|AI973348
EST:     ATCCTTAATTCG                         CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
genomic: ATCCTTAATTCGgtatgtatta ... aaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
EST: gi|37382952|gb|CF628448.1|CF628448
EST:     GAAGACAGAACATTTGTGTCATCTATCCTTAATTCG                         CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
genomic: GAAGACAGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtatta ... aaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
EST: gi|15053278|gb|BI358823.1|BI358823
EST:     AAGACAGAACG-TTGTGTCATCTATCCTTAATTCG                         CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
genomic: AAGACAGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtatta ... aaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
EST: gi|60354976|gb|DN221949.1|DN221949
EST:     TGAGTAAGGTGTTTGAAGACAGAACATTTGTGTCATCTATCCTTAATTCG                         CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
genomic: TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtatta ... aaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
EST: gi|4609687|gb|AI600526.1|AI600526
EST:     TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCG                         CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA
genomic: TGAGTAAGGTGTTTGAAGACAGAACGTTTGTGTCATCTATCCTTAATTCGgtatgtatta ... aaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattttagctgcagcttcaataatttattggccctttttatgtgtaaaataacagCTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAG
                                  tttttatgtgtaaaat  TA-rich tract