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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctttaatgcccacccccctgttttgtaaccaatcaattatcacaatttattgttgctccacctgctatcattgtattgttttgtcaagatttg...

Basic information

species Zea mays
transcript GRMZM2G421857_T04
intron # 18
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G421857_T02 (Zea mays), 5'ss of exon 17
lower sequence: LOC_Os02g07870.1 (Oryza sativa), 5'ss of exon 17
ATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctttaatgcccacccccctgttttgtaaccaatcaattatcacaatttattgttgctccacctgctatcattgtattgttttgtcaagatttg-
|||||||||||  ||||||||||||||||| |||||||||||||||||||||||||| ||||||||||||||||  |||||||  ||| |  | ||       |  |  | |  | | |   ||   | ||   ||  | |||         |||||   |    |||  ||| | ||| 
ATATGATAAGTATTGCCCATTCTACAAATCTGTTTGGATGATGCGCAACATTATTCATTTCAACACATTGGCAACCCAGgtaaattctcttgttccaggaattcgataatttgccaattttctttagaaaaccaatcctagctgactagaaaatcatgccaaaacttt-ccaataattgt

upper sequence: GRMZM2G421857_T02 (Zea mays), 5'ss of exon 17
lower sequence: GLYMA07G00430.1 (Glycine max), 5'ss of exon 18
ATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt-taatgcccacccccctgttttgtaaccaatcaattatcacaatttattgttgctccacctgctatcattgtattgttttgtcaagatttg
||||||||| || ||||| |||||||| || ||||||||||||||||||||||| || ||| |||  ||||||||||||||| |||  | ||| |       |  | ||| ||     ||  || |  | ||   |           | ||  |||||||   | |    ||||| |   
ATATGATAAATTTTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACATTATCCATTTCTACAATTTGGCAAATCAGgtatggtagtgtaaggaatcaggcagtttttggtgttttatttat-actagaaaaaagaagaaaagtccatgtaatcattggcatctaggttcaagttact

upper sequence: GRMZM2G421857_T02 (Zea mays), 5'ss of exon 17
lower sequence: GLYMA08G23990.1 (Glycine max), 5'ss of exon 18
ATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt-taatgcccacccccctgttttgtaaccaatcaattatcacaatttattgttgctccacctgctatcattgtattgttttgtcaagatttg
|||||| || |||||||| |||||||| || ||||||||||||||||||||||| || ||| |||  ||||||||||||||| |||  | ||| |       |  | ||| ||     ||  || || | ||   |           | ||  |||||||   | |    ||||| |   
ATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACATTATCCATTTCTACAATTTGGCAAATCAGgtatggtggtgtaaggaatcaggcagtttttggtgttttatttat-attagaaaaaagaagaaaagtccatgtaatcattggcatctaggttcaagttact

upper sequence: GRMZM2G421857_T02 (Zea mays), 5'ss of exon 17
lower sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 18
ATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctttaatgcccacccccctgttttgtaaccaatcaattatcacaatttattgttgctccacctgctatcattgtattgttttgtcaagatttg---
|||||| || ||||| || |||||||| ||||| ||||||||||| |||||||| || ||| |||   | || || |||||||      | |     |  |   |  | ||   | ||      || |   |  ||||  | |   |  | ||  |    |||  ||  |   |||      
ATATGACAAATTCTGTCCTTTCTACAAGTCCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataagatgagatttataca--tactatg---ctaagtggggattaaggtcaattg--gtttgtctaggtaaaaacccattaattgttttggatacacag

upper sequence: GRMZM2G421857_T02 (Zea mays), 5'ss of exon 17
lower sequence: Vv09s0054g00890.t01 (Vitis vinifera), 5'ss of exon 18
ATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctttaatgcccacccccctgttttgtaaccaatcaattatcacaatttattgttgctccacctgctatcattgtattgttttgtcaagat--ttg--------
|||||||||||||||||| |||||||| || ||||||||||||||||| ||||| || ||| | |  ||||| |||||||||         |||  |  | | || | ||   |||   |   |  | |  |||  | || |||      ||||  ||||  ||||| | ||||||  |||        
ATATGATAAGTTCTGCCCCTTCTACAAGTCGGTTTGGATGATGCGCAATATTATCCATTTCTATAATTTGGCCAATCAGgta-------cgatgttcctctctctctctttccacc--ccccctcccccgttttcctttttctctttgacctattgttgtcatgttt-gccaagatcattgtgtctgta

upper sequence: GRMZM2G421857_T02 (Zea mays), 5'ss of exon 17
lower sequence: PP1S8_312V6.1 (Physcomitrella patens), 5'ss of exon 18
ATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctttaatgcccacccccctgttttgtaaccaatcaattatcacaatttattg--ttgctccacctgct-atcattgtattgttttgtcaagatttg--------------------------------------------------------------------------
 ||||| || ||||||||||||||||| || || ||||||||||| || ||| | |||||||||||  | |||||||||||  | || ||| | |  |      |  ||| | |   |||  ||    |  ||| |||  ||| | ||     |  | |     |||  ||||  | ||||                                                                           
TTATGACAAATTCTGCCCATTCTACAAGTCTGTGTGGATGATGCGTAATATTGTCCACTTCAACACTCTTGCAAATCAGgtttgctcgttattccaaaatgtttttgtttattatttatcttttcctcctcttttttgaattgattcattaatttgttaaatctttgagttgttcaaattttgatgattgggtggttgtatctcaactcgtatgtttacaaattccaaaactaatgagcgatgatttcatctgcag

upper sequence: GRMZM2G421857_T02 (Zea mays), 5'ss of exon 17
lower sequence: PP1S44_102V6.1 (Physcomitrella patens), 5'ss of exon 18
ATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctttaatgcccacccccctgttttgtaaccaatcaattatcacaatt-tattgttgctccacctgct-atcattgtattgttttgtcaagatttg
 |||||||| || |||||||| || || || || |||||||||||||||||| | |||||||||||  | || ||||||||   || ||        |      |||     |   | |    | |   | || | ||  || |  |  || | ||  || | |  | | |    || |  
TTATGATAAATTTTGCCCATTTTATAAGTCGGTGTGGATGATGCGCAACATTGTCCACTTCAACACTCTTGCCAATCAGgtctcgttttgcccataaattttaatgtgcatcagttagttttgtttgttacttgttttagtggtgaatgtgatgatttttatgtattctcgcacggaat--

upper sequence: GRMZM2G421857_T02 (Zea mays), 5'ss of exon 17
lower sequence: PP1S10_201V6.1 (Physcomitrella patens), 5'ss of exon 18
ATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctttaatgcccacccccctgttttgtaaccaatcaattatcacaatttattgttgctccacctgctatcattgtattgttttgtcaagatttg---
 ||||||||||||||||||||||| ||||| || |||||||||||||| ||| | ||||| |||||  | || ||||||||    ||| | |  |    |   ||||   ||   || |||| | |  |   | |||  |||||   |   ||    |  ||   ||  |||| || |    
TTATGATAAGTTCTGCCCATTCTATAAATCAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAGgtctt-tctctcactcgattcttactgtacagttggca-tcaagtttttccggtcattactgctct-tcaattagttgttcatatcttgatcaacatgtttac

upper sequence: GRMZM2G421857_T02 (Zea mays), 5'ss of exon 17
lower sequence: EFJ33015 (Selaginella moellendorffii), 5'ss of exon 17
ATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctttaatgcccacccccctgttttgtaa-ccaatcaattatcacaatttattgttgctccacctgctatcattgtattgttttgtcaagatttg
||| |||||||| || || |||||||| ||||||||||||||||| |||||  |||| |||  |    || | | ||||||| |  ||   || ||     | |    ||| ||    |     | |  ||                                                 
ATACGATAAGTTTTGTCCGTTCTACAAGTCCGTTTGGATGATGCGAAACATCGTTCATTTCTGCGACCTGTCCACTCAGgtatgcactgccatacctctttcacgtccttgaaaatttactttctcttgcag------------------------------------------------

upper sequence: GRMZM2G421857_T02 (Zea mays), 5'ss of exon 17
lower sequence: EFJ30330 (Selaginella moellendorffii), 5'ss of exon 18
ATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctttaatgcccacccccctgttttgtaacca-atcaattatcacaatttattgttgctccacctgctatcattgtattgttttgtcaagatttg
||| |||||||| || || |||||||| ||||||||||||||||| |||||  | || |||  |    || | | ||||||| |  ||   || ||     | |    ||| ||    |     | |  ||                                                 
ATACGATAAGTTTTGTCCGTTCTACAAGTCCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAGgtatgcactgccatacctctttcacgtccttgaaattttactttctcttgcag------------------------------------------------

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|32850183|gb|CD989864.1|CD989864
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTA
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTA
EST: gi|32921243|gb|CF026055.1|CF026055
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGT
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGT
EST: gi|67026160|gb|CO454909.1|CO454909
EST:     CTGTTTGGATGATGCGCAACATTATTCACTTNAACACATTGGCCAATCAG                         GCTGGTGGAACGGGCAGCTGGTACTGACCGCCCACA-GATAACATACAGTG
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTG-TGGAGCGGGCAGCTGGTACTGACGGCC-ATAAGATAACATACAGTG
EST: gi|32845901|gb|CD985582.1|CD985582
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGT
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGT
EST: gi|32922059|gb|CF026871.1|CF026871
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGT
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGT
EST: gi|24774168|gb|CA409422.1|CA409422
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
EST: gi|8368089|gb|BE051034.1|BE051034
EST:     CTGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
EST: gi|32921648|gb|CF026460.1|CF026460
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGT
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGT
EST: gi|211529162|gb|FL123428.1|FL123428
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
EST: gi|6020503|gb|AW065431.1|AW065431
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
EST: gi|32849884|gb|CD989565.1|CD989565
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
EST: gi|32846431|gb|CD986112.1|CD986112
EST:     CCGTTTGAATGATGCGCAACATTATTCACTTCAACACATTGACAAATCAG                         GCTGTGGAGCGGGCAGCTGGT
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGT
EST: gi|32921100|gb|CF025912.1|CF025912
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGT
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGT
EST: gi|32846734|gb|CD986415.1|CD986415
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTA
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTA
EST: gi|8368090|gb|BE051035.1|BE051035
EST:     CTGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
EST: gi|211156007|gb|FL123542.1|FL123542
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
EST: gi|8665370|gb|BE186186.1|BE186186
EST:     CTGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGACGGCCACAAGATAACATACAGTGTC
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
EST: gi|40334940|gb|CK369010.1|CK369010
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
EST: gi|6227177|gb|AW155706.1|AW155706
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
EST: gi|32921742|gb|CF026554.1|CF026554
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGT
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGT
EST: gi|32920116|gb|CF024928.1|CF024928
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGT
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGT
EST: gi|32921546|gb|CF026358.1|CF026358
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGT
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGT
EST: gi|60352649|gb|DN219622.1|DN219622
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC