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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atcctttgccccctgaaaaagattgcatcgtaaatttgaactacacattgctttctacataattgcatggtaaatctcgctttgtatcgcaatgttgcagGTTCCTTTTTTCTCCCAGATGGATGATCAGCTTCTTGATGCCATCTGTGAGCGTCTTGTATCATCACTGTGCACAAAAGGCACATACATTGTCCGTGAGG

Basic information

species Zea mays
transcript GRMZM2G005791_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G005791_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os02g54760.1 (Oryza sativa), 3'ss of exon 6
atcctttgccccctgaaaaagattgcatcgtaaatttgaactacacatt-gctttctacataattg-catggtaaatctcgctttg--tatcgcaatgttgcagGTTCCTTTTTTCTCCCAGATGGATGATCAGCTTCTTGATGCCATCTGTGAGCGTCTTGTATCATCACTGTGCACAAAAGGCACATACATTGTCCGTGAGG
    |||        |||   ||| | | |  |||||  ||||||  || || || ||| | |  |   || ||| | |  ||||   || | |||| || ||||||||||| ||||||||||||||  |||| ||| | || ||||||||||||||||||||||||||  |||||||| | ||||||||||||||||||||||
----tttttttaaaaaaatgcatttcttgggcaatttacactacaggtttgccttatacttgaccggtgtgctaattttgtctttacctaccacaatatttcagGTTCCTTTCTTCTCCCAGATGGACAATCAACTTTTGGACGCCATCTGTGAGCGTCTTGTATCATCGTTGTGCACACAGGGCACATACATTGTCCGTGAGG

upper sequence: GRMZM2G005791_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA06G08170.1 (Glycine max), 3'ss of exon 8
---atcctttgccccctgaaaaagattgcatcgtaaatttgaactacacattgctttctacataattgcatggtaaatctcgctttgtatcgcaatgttgcagGTTCCTTTTTTCTCCCAGATGGATGATCAGCTTCTTGATGCCATCTGTGAGCGTCTTGTATCATCACTGTGCACAAAAGGCACATACATTGTCCGTGAGG
   |   |      ||| || |  || |    || |   || |      |||   | | |   |  | |||  |  |  | ||||  | ||       | |||||||| |||||||| || |||||||||||||| |||||||| || |||||| |  | ||||||||| || | ||  |||||||  |||| ||  | || |
gatagtataaaaatccttaatactatcgg--tgtgacagtgcatctactattttctgcaattcatatacatcatgtaa-tggcttcttttccaccaactacagGTTCCCTTTTTCTCACAAATGGATGATCAGCTACTTGATGCAATATGTGAGAGATTGGTATCATCATTGAGTACTCAAGGCACGAACATAGTTAGAGAAG

upper sequence: GRMZM2G005791_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA04G24950.1 (Glycine max), 3'ss of exon 6
--------atcct-ttgccccc--tgaaaaagattgcatcgtaaatttgaactacacattgctttctacataattgcatggtaaatctcgctttgtatcgcaatgttgcagGTTCCTTTTTTCTCCCAGATGGATGATCAGCTTCTTGATGCCATCTGTGAGCGTCTTGTATCATCACTGTGCACAAAAGGCACATACATTGTCCGTGAGG
         |||| |||   ||  |||| |  | ||| | |||| | | || |  ||  |  |      |  | ||  |   ||||  | |||| ||| ||    || |||||||| || ||||| |||||||||||||||||||| ||||| || |||||||| || ||||| || ||| ||||  ||||||| |||||||| |||||||
atgattgattcctattgatgccaatgaacacaaatgc-tagtaagtataaaatttactctatt----gtaagagtgtttaacaaattcc-ctttctat-gc----tttcagGTTCCCTTCTTCTCACAGATGGATGATCAGCTTCTGGATGCAATATGTGAGCGGCTGGTATCGTCTCTGAGCACTCAAGGCACCTACATTGTTCGTGAGG

upper sequence: GRMZM2G005791_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA06G30030.2 (Glycine max), 3'ss of exon 7
---atcctttgccccc--tgaaaaagattgcatcgtaaatttgaactacacattgctttctac-ataattgcatggtaaatctcgctttgtatcgcaatgttgcagGTTCCTTTTTTCTCCCAGATGGATGATCAGCTTCTTGATGCCATCTGTGAGCGTCTTGTATCATCACTGTGCACAAAAGGCACATACATTGTCCGTGAGG
   ||   || ||     ||  || ||    |      ||   || || | | |    ||||   ||| |   |   ||||  | |||| |||      ||| |||||||| || ||||| |||||||||||||| ||||| ||||| || |||||||| || ||||| || ||| ||||  |||| || |||||||| |||||||
aagattgattcccattgatgccaatgaacatagaaatgatagtaagtataaaatttactctattgtaagtatttaacaaattcc-ctttctatg-----gtttcagGTTCCCTTCTTCTCACAGATGGATGATCAACTTCTGGATGCAATATGTGAGCGGCTGGTATCGTCTCTGAGCACTCAAGGAACCTACATTGTTCGTGAGG

upper sequence: GRMZM2G005791_T01 (Zea mays), 3'ss of exon 5
lower sequence: AT4G30360.1 (Arabidopsis thaliana), 3'ss of exon 5
atcctttgccccctgaaaaagattgcatcg-taaatttgaactacacattgctttctacataattgcatggtaaatctcgctttgtatcgcaatgttgcagGTTCCTTTTTTCTCCCAGATGGATGATCAGCTTCTTGATGCCATCTGTGAGCGTCTTGTATCATCACTGTGCACAAAAGGCACATACATTGTCCGTGAGG
              | ||    ||  || | |   |||   ||||| || |  ||| ||    ||  | | ||| |      ||| |||       ||||||| || |||||||| || |||||||||||||| |||||||| || |||||||| || || || || ||||| ||  |||| || ||| |||| ||||| |
--------------gtaagtttttctattgatttgtttatcctacaaatgg--ttcaac----ttttaggttaactactatcttgaatca------tgcagGTCCCATTTTTCTCTCAAATGGATGATCAGCTGCTTGATGCGATATGTGAGCGCCTGGTTTCTTCTCTGTGTACTGAAGGGACTTACCTTGTACGTGAAG

upper sequence: GRMZM2G005791_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv04s0069g00790.t01 (Vitis vinifera), 3'ss of exon 6
-----------atccttt-gccccctgaaaaagattgcatcgtaaatttgaactacacattgctttctacataattgcatggtaaatctcgctttgtatcgcaatgttgcagGTTCCTTTTTTCTCCCAGATGGATGATCAGCTTCTTGATGCCATCTGTGAGCGTCTTGTATCATCACTGTGCACAAAAGGCACATACATTGTCCGTGAGG
           |||||||  |  |       |||    || ||  | |  || |  | |||  | |  |||| |    |   |  | || ||     ||         ||||||||| |||||||| ||||||||||||||||| |||||||| || |||||||| || ||||||||  || | ||  |||| || ||||| || || ||||
tcaaaaatggaatcctttcacttcacctggtagagcaaat-gtggagt-aaaatgtaaatta-tcttgacatcagcttacattggaacttgccccaaat---------gcagGTTCCCTTTTTCTCACAGATGGATGATCAGCTACTTGATGCAATATGTGAGCGCCTAGTATCATCCTTGAGTACTCAAGGTACCTACATAGTTCGCGAGG

upper sequence: GRMZM2G005791_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv11s0065g00930.t01 (Vitis vinifera), 3'ss of exon 4
-atcctttgccccctgaaaaagattgcatcgtaaatttgaa--ctacacattgctttctacataattgcatggtaaatctcgctttgtatcgcaatgttgcagGTTCCTTTTTTCTCCCAGATGGATGATCAGCTTCTTGATGCCATCTGTGAGCGTCTTGTATCATCACTGTGCACAAAAGGCACATACATTGTCCGTGAGG
 ||            ||| ||   ||  |   ||   |||    |  | |  | |   |  ||| |  |||  |||  |  ||||  | |    || || |||||||| || ||||| ||||||||||||||||| |||||||| ||||||||||||||   ||||||  |  ||||  ||||||| || || ||||| ||||
catttcccatattaagaagaaatatgagtaaaaatggtgacacttgtagaaagttcattttatattatcatattaa--cctgcttcctttttacat-ttacagGTTCCATTCTTCTCTCAGATGGATGATCAGCTACTTGATGCAATCTGTGAGCGTCTAACATCATCTTTAAGCACTGAAGGCACCTATATCGTCCGAGAGG

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|74234952|gb|DT642866.1|DT642866
EST:     ACCTTCGACGTGACATTAAGCGCCACCTTTGCCTGGGTCTTGTTCGACGG                         GTTCCTTTTTTCTCCCAGATGGATGATCAGCTTCTTGATGCCATCTGTGAG
genomic: ACCTTCGACGTGACATTAAGCGCCACCTTTGCCTGGGTCTTGTTCGACGGgtaaatactt ... aatgttgcagGTTCCTTTTTTCTCCCAGATGGATGATCAGCTTCTTGATGCCATCTGTGAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattgctttctacataattgcatggtaaatctcgctttgtatcgcaatgttgcagGTTCCTTTTTTCTCCCAGATGGATGATCAGCTTCTTGATGCCATCTGTGAGCGTCTTGTATCATCACTGTGCACAAAAGGCACATACATTGTCCGTGAGG
          tacataatt  TA-rich tract