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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgattttttattaacagtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG

Basic information

species Zea mays
transcript GRMZM2G165357_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G165357_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g16980.3 (Oryza sativa), 3'ss of exon 7
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgattttttattaacagtatttatca-tctatgtctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
                            ||||||  ||| |||||  ||| |||||  ||||||   |   || || |  || |   | |  |||||||  || ||||| |||||||| ||||| |||||||||||||||||||||||||| ||||||||||||||||||||||| ||||||||||| ||||||||||||||||| || ||
--------------------------gtaatatttttagttcata--cctttttgtcttgtgatg--tactggattgtagttctccttaataagtattttccaatctatctctgtagAGATCCGAATTGCCAGGATTTTCAACACCTATGGACCTAGGATGAACATTGATGATGGGCGTGTTGTTAGTAACTTCATTGCTCAGGCCGTACG

upper sequence: GRMZM2G165357_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g16980.5 (Oryza sativa), 3'ss of exon 8
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgattttttattaacagtatttatca-tctatgtctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
                            ||||||  ||| |||||  ||| |||||  ||||||   |   || || |  || |   | |  |||||||  || ||||| |||||||| ||||| |||||||||||||||||||||||||| ||||||||||||||||||||||| ||||||                             
--------------------------gtaatatttttagttcata--cctttttgtcttgtgatg--tactggattgtagttctccttaataagtattttccaatctatctctgtagAGATCCGAATTGCCAGGATTTTCAACACCTATGGACCTAGGATGAACATTGATGATGGGCGTGTT-----------------------------

upper sequence: GRMZM2G165357_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA15G04500.2 (Glycine max), 3'ss of exon 9
gtaacacttcatctttca---cttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgattttttattaacagtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
||||    |  |||||     |||| | ||   | |   |   |   || | | |    || | |||   |||  | || | |  |  | | |   || | |||   || |     ||||||| || ||||| || || || ||||| ||||| ||  | ||||| ||||||||||| |||||||| ||||||||||||||||| ||  ||||
gtaatttattgtctttttttccttataatttcttctcgttttgtttaaggcatatccaata-gagatttttctttgttttttaactcct-tgaggtgtttatatatcctttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGCAACTTCATTGCTCAAGCACTGCG

upper sequence: GRMZM2G165357_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA11G15010.1 (Glycine max), 3'ss of exon 8
--------------gtaacacttcatctttcacttaa----acttcaat-attagtagctcata----gccctctttgttatg-tgataactctgggcttatgattttttattaacagtatttatcatctatgtctgt-agAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
               ||    ||| | ||   |||      |  ||| | |||    || || |     | |  ||||   || || |||||        || | |   | | |    ||||| |||| | | ||| | |||||| || ||||| || || |||||||| ||||| ||  | ||||| ||||||||||| |||||||| || |||||||||||||| ||  | ||
gtaattccttatctttattttttccttttctccttggcaacatctcattgattgagggcacaaacagtacacgttttgcactgctgttaactaataagcaataactcaatgtgatgcttattt-tcatatttttctctcagAAATACGCATTGCGAGAATCTTCAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGTAACTTCATTGCTCAAGCAATTCG

upper sequence: GRMZM2G165357_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA13G40960.1 (Glycine max), 3'ss of exon 9
---gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgattttttattaacagtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
    |  |   || |||||  |||  | ||   | | | |   |  ||  | | |    ||     | |   | |  |  | | |  || |     || | | ||  || |     ||||||| || ||||| || || || ||||| ||||| ||  | ||||| ||||||||||| |||||||||||||||||||||||||| ||  | ||
gtaatttcttgtcttcttttccttgtaatttcttctcattttgtt-tacacatatccagtagagatttatctttgtttcttaactccttgtggt--gtttatgtctcctttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTTAGCAACTTCATTGCTCAAGCACTTCG

upper sequence: GRMZM2G165357_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA12G06990.1 (Glycine max), 3'ss of exon 8
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgattttttattaacagtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
||||   ||| ||| |   ||   |||||    |||| |    | || |  | |  ||  || ||    |     | ||   ||| | | |   |  |     ||| |     ||||||| ||  |||| || || || ||||| ||||||||  | ||||| ||||||||||| |||||||| ||||||||||||||||| ||  | ||
gtaa--tttcttctcttcttttttcttca----tagttgtctgttgctccttgttataactggtagaaatttttctctgtaatttaactgagttttctatatttctttcaacatagAAATACGTGTTGCAAGAATCTTTAACACATATGGGCCGCGCATGAATATTGATGATGGACGTGTTGTCAGCAACTTCATTGCTCAAGCAATTCG

upper sequence: GRMZM2G165357_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA11G15020.1 (Glycine max), 3'ss of exon 8
---------gtaacacttcatctttcacttaaacttcaatattagtagct----catagccctcttt-gtta--tgtgataactctgggcttatgattttttat----taacagtatttatcatctatgtct----gtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
         |     |||    |   | ||    || | | ||  |   |    |||||   ||||| |||   ||| ||| ||    |   ||  | |||| |    |||| |  ||| | || | | | |     ||||||| ||  |||| || || || ||||| ||||||||  | ||||| ||||||||||| |||||||| ||||||||||||||||| ||  | ||
gtaatttctgctcttcttttcttcatagttgttgttgattgttgttgttttcttcatagttgtcttttgttccttgttatagctggtagaaaattttcttttgtaagttaactgagttttttatatttctttcaacatagAAATACGTGTTGCAAGAATCTTTAACACATATGGGCCACGCATGAATATTGATGATGGACGTGTTGTCAGCAACTTCATTGCTCAAGCGATTCG

upper sequence: GRMZM2G165357_T02 (Zea mays), 3'ss of exon 7
lower sequence: AT2G28760.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgata-actctgggcttat-gattttttattaacagtatttatcatctatgt-ctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
                            || |||| |  ||| |   ||  ||| ||      |    | |  |||||| |  |  ||| | |     | |||  |||      |||||| || || || || ||||| |||||||| ||||| ||| | ||||||||||||||||| || ||||| ||||||||||||||||||||| |  |
--------------------------gtaaaattaatcactcttttaccattttcttgaaaactttgatttaagcttattggctgattagttattacttctattgtctggccattgtagAGATACGCATAGCGAGGATATTCAACACATATGGTCCTCGTATGAACATTGATGATGGTCGCGTTGTGAGCAACTTCATTGCTCAGGCTCTCAG

upper sequence: GRMZM2G165357_T02 (Zea mays), 3'ss of exon 7
lower sequence: AT3G46440.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgattttttattaacagtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
||||   | ||| ||   || |  ||      | |           |||| |   ||   | |  |   |    || |  ||| ||  | | | | ||| |  |   | | |||||||||||| ||||| || || |||||||| ||||| ||  | |||||||| ||||||||||||||||| |||||||||||||| || ||  | ||
gtaa-gttgcatttt---ctcaggctctcgcttcaactttct----ccctgtaatttgcatcaacatattctcattgtcctttattccttaaattgtttttgtttcttctttgtagAAATCCGCATTGCTAGAATCTTCAACACTTATGGTCCACGCATGAACATCGATGATGGCCGTGTTGTAAGCAACTTCATTGCACAAGCACTCCG

upper sequence: GRMZM2G165357_T02 (Zea mays), 3'ss of exon 7
lower sequence: AT5G59290.2 (Arabidopsis thaliana), 3'ss of exon 7
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgattttttattaacagtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
       |   | ||  ||||   |   ||  | | |    |||  |  | ||  ||||    | | ||     ||| |||| |  |||  |  | ||| ||||       |||||||||||| ||||| || || |||||||| ||||| ||| | |||||||| |||||||| |||||||| ||||||||||||||||| ||  | ||
------gtcagttttctactt---ccctaaactcactg---catcacttttttctttatccagtgattcc---tttaagattctc-attggcc-tgtttgtcatt------tgtagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCG

upper sequence: GRMZM2G165357_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv13s0019g00840.t01 (Vitis vinifera), 3'ss of exon 8
---------------------------------------------------------------gtaa-cacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtga-taactctgggcttatgattttttattaacagtatttatcatctatg--tctgta---gAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
                                                                 |  ||||   ||  | |    |  |  || |||  |  |||    |||       | | |   | |  ||   |||   | |      | ||  |||||   |    ||   || ||   || || |||||||||||||| ||||| || ||||| ||  | ||||| |||||||| || |||||||| ||||| ||||||||||| ||  | ||
gtaaaattgggctccctctctctgatccatacacccaacacacagacacccccacacctacacacattcactcagtcactgatgggatgtgtaaaattgttcactcccttcccctccctctctctatctgaaactctactttccaatgcactctcactttattttgaaatggtgatcctataacagAGATACGGATTGCCAGGATATTCAATACTTATGGACCCCGAATGAATATTGATGACGGGCGTGTTGTCAGCAATTTCATTGCTCAAGCAATTCG

upper sequence: GRMZM2G165357_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv06s0004g04390.t01 (Vitis vinifera), 3'ss of exon 8
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgg-gcttatgattttttattaacagtatttatcatctatgtct---gtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
                            ||  || ||   |  |     | ||  |  ||    ||||     |  |||||  ||||| ||    | ||  |  | ||| | |     |||||| || ||||| || ||||||||||| ||||||||  | ||||| ||||||||||| |||||||| ||||| ||||| ||||| ||  | ||
--------------------------gtaacttttgtgtttttt----tttttaatcctgaacaaacttcaatgaatatgaagttttaatatgtatgttgtttctttatattttggacagAAATACGCATTGCTAGAATTTTCAACACATATGGGCCCCGCATGAATATTGATGATGGACGTGTTGTCAGCAATTTCATAGCTCAAGCACTTCG

upper sequence: GRMZM2G165357_T02 (Zea mays), 3'ss of exon 7
lower sequence: EFJ17446 (Selaginella moellendorffii), 3'ss of exon 7
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgattttttattaacagtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
                                                       ||    |||  || | |  | ||||   |    |       |  |  |  | |      ||| ||  |||| ||  | ||||||||||| || |||||  ||||||| || || ||||| || || ||||||||||||||||| || ||| |  |
-----------------------------------------------------gtttgctcgattgctttagcttgatgacgct--ggttctgacgtccagtaattct-----cagAGATAAGGATCGCTCGCATTTTCAACACTTACGGGCCCCGGATGAATATCGACGATGGACGGGTCGTTAGCAACTTCATTGCCCAAGCTCTAAG

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|149070503|gb|EE158907.2|EE158907
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGGATTGCCAGGATTTTNCA-CACCTATGGGCCTAGGATGAACATT
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaacacttc ... atgtctgtagAAATCCGGATTGCCAGGATTTT-CAACACCTATGGGCCTAGGATGAACATT
EST: gi|32838870|gb|CD978551.1|CD978551
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaacacttc ... atgtctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTG
EST: gi|13558126|gb|BG549482.1|BG549482
EST:     GAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTG
genomic: GAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaacacttc ... atgtctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTG
EST: gi|32850602|gb|CD990283.1|CD990283
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGGATTGCCAGGATTTTCAGCACCTATGGGCCTAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaacacttc ... atgtctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTG
EST: gi|149082965|gb|EE172201.2|EE172201
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaacacttc ... atgtctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTG
EST: gi|60394382|gb|DN227252.1|DN227252
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaacacttc ... atgtctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTG
EST: gi|71449952|gb|DR831002.1|DR831002
EST:     AGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCA-TG                         A
genomic: AGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaacacttc ... atgtctgtag-
EST: gi|71449952|gb|DR831002.1|DR831002
EST:     AGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCA-TG                         A
genomic: AGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaacacttc ... atgtctgtag-
EST: gi|149070980|gb|EE159385.2|EE159385
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaacacttc ... atgtctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTG
EST: gi|71444250|gb|DR825300.1|DR825300
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaacacttc ... atgtctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTG
EST: gi|60339871|gb|DN206844.1|DN206844
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaacacttc ... atgtctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTG
EST: gi|18173577|gb|BM348965.1|BM348965
EST:     AGCATGGCATTG                         AAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTG
genomic: AGCATGGCATTGgtaacacttc ... atgtctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTG
EST: gi|15100352|gb|BI396143.1|BI396143
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaacacttc ... atgtctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTG
EST: gi|45213764|gb|CK850000.1|CK850000
EST:     CGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTG
genomic: CGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaacacttc ... atgtctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gataactctgggcttatgattttttattaacagtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
                        tattaac  putative branch site (score: 1)
             ttatgattttttatta  TA-rich tract