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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACAAGTGTTGTTTAATATTAGATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAGgtaagctctcaactagcagtacttctgtaatttttgagtaaatgtttttcctgcagattgttttgcaatgatcaaggaaacttattaaacttctgattgt...

Basic information

species Zea mays
transcript GRMZM2G128877_T04
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G128877_T04 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os02g07870.1 (Oryza sativa), 5'ss of exon 17
ACAAGTGTTGTTTAATATTAGATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAGgtaagctctcaactagcagtacttctgtaatttttgagtaaatgtttttcctgcagattgttttgcaatgatcaaggaaacttattaaa--cttctgattgt---
                     |||||||||||  ||||||||||||||||| ||||||||||||||||| |||||||| ||||||||||||||||  |||||||  ||||   |  ||| | |||  ||||||   | |     ||| |   | | |    |      |||  |   || | |   |||   |||  ||  |   
---------------------ATATGATAAGTATTGCCCATTCTACAAATCTGTTTGGATGATGCGCAACATTATTCATTTCAACACATTGGCAACCCAGgtaaattctcttgttccaggaattcgataatttgccaat-----tttctttagaaaaccaatcctagctgactagaaaatcatgccaaaactttccaataattgt

upper sequence: GRMZM2G128877_T04 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA07G00430.1 (Glycine max), 5'ss of exon 18
ACAAGTGTTGTTTAATATTAGATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAGgtaagctctcaactagcagtacttctgtaatttttgagtaaatgtttttcctgcagattgttttgcaatgatcaaggaaactt----attaaacttctgattgt-
                     ||||||||| || ||||| |||||||| || ||||||||||||||||| ||||| || ||| |||  ||||||||||||||| | |    | |   || | |   | | ||||||      | ||| | ||  | |       | || |  || | || | |    ||  |  |||   ||   
---------------------ATATGATAAATTTTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACATTATCCATTTCTACAATTTGGCAAATCAGgtatggt----agtgtaaggaatcaggcagtttttggtgttttatttatactagaaaaaagaa-gaaaagtccatgtaatcattggcatctaggttcaagttact

upper sequence: GRMZM2G128877_T04 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA08G23990.1 (Glycine max), 5'ss of exon 18
ACAAGTGTTGTTTAATATTAGATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAGgtaagctctcaactagcagtacttctgtaatttttgagtaaatgtttttcctgcagattgttttgcaatgatcaaggaaactt----attaaacttctgattgt-
                     |||||| || |||||||| |||||||| || ||||||||||||||||| ||||| || ||| |||  ||||||||||||||| | |      |   || | |   | | ||||||      | ||| |  |  | |       | || |  || | || | |    ||  |  |||   ||   
---------------------ATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACATTATCCATTTCTACAATTTGGCAAATCAGgtatggt----ggtgtaaggaatcaggcagtttttggtgttttatttatattagaaaaaagaa-gaaaagtccatgtaatcattggcatctaggttcaagttact

upper sequence: GRMZM2G128877_T04 (Zea mays), 5'ss of exon 1
lower sequence: Vv09s0054g00890.t01 (Vitis vinifera), 5'ss of exon 18
ACAAGTGTTGTTTAATATTAGATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAGgtaagct-ctcaactagcagtacttctgtaatttttgagtaaatgtttttcctgcagattgttttgcaatgatcaaggaaacttattaaacttctgattgt-
                     |||||||||||||||||| |||||||| || ||||||||||||||||||||||| || ||| | |  ||||| ||||||||| | |  ||  ||  |  |  |||         |       | ||  |  | |   |||   |    |  ||| |    |  |  |   || ||  ||| 
---------------------ATATGATAAGTTCTGCCCCTTCTACAAGTCGGTTTGGATGATGCGCAATATTATCCATTTCTATAATTTGGCCAATCAGgtacgatgttcctctctctctctttccaccccccctcccccgtt-ttcctttttctctttgacctattgttgtcatgtttgccaag-atcattgtgtctgta

upper sequence: GRMZM2G128877_T04 (Zea mays), 5'ss of exon 1
lower sequence: PP1S8_312V6.1 (Physcomitrella patens), 5'ss of exon 18
ACAAGTGTTGTTTAATATTAGATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAGgtaagctctcaactagcagtacttctgtaatttttgagtaaatgtttttcctgcagattgttttgcaatgatcaaggaaacttattaaacttctga-ttgt-----------------------------------------------------------------------------------
                      ||||| || ||||||||||||||||| || || ||||||||||| |||||| | |||||||||||  | |||||||||||  ||||   | |  ||  |  | | |  || ||   ||  | ||  ||||      | ||||| | ||||  |  ||  || |||||  | ||| ||||                                                                                   
---------------------TTATGACAAATTCTGCCCATTCTACAAGTCTGTGTGGATGATGCGTAATATTGTCCACTTCAACACTCTTGCAAATCAGgtttgctcgttattc-caaaatgtttttgtttattatttatcttttcctcct-----cttttttgaattgattcattaa-tttgttaaatctttgagttgttcaaattttgatgattgggtggttgtatctcaactcgtatgtttacaaattccaaaactaatgagcgatgatttcatctgcag

upper sequence: GRMZM2G128877_T04 (Zea mays), 5'ss of exon 1
lower sequence: PP1S44_102V6.1 (Physcomitrella patens), 5'ss of exon 18
ACAAGTGTTGTTTAATATTAGATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAGgtaagctctcaactagcagtacttctgtaatttttgagtaaatgtttttcctgcagattgtttt-gcaatgatcaaggaaacttat-taaacttctgattgt---
                      |||||||| || |||||||| || || || || |||||||||||||| ||| | |||||||||||  | || ||||||||    | |   | |  | |  |  |||   |    ||| |  |||||   ||    ||||||| |   |||    |   | || | |  | |   |   |    
---------------------TTATGATAAATTTTGCCCATTTTATAAGTCGGTGTGGATGATGCGCAACATTGTCCACTTCAACACTCTTGCCAATCAGgtctcgttttgcccataaattttaatgtgcatc---agtta--gttttgtttgttacttgttttagtggtgaatgtgatgatttttatgtattctcgcacggaat

upper sequence: GRMZM2G128877_T04 (Zea mays), 5'ss of exon 1
lower sequence: PP1S10_201V6.1 (Physcomitrella patens), 5'ss of exon 18
ACAAGTGTTGTTTAATATTAGATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAGgtaagctctcaactagcagtacttctgtaatttttgagtaaatgtttttcctgcag--attgttttgcaatgatcaaggaaacttattaaacttctgattgt
                      ||||||||||||||||||||||| ||||| || |||||||||||||||||| | ||||| |||||  | || ||||||||         ||| | | |  | |||||   || |  | || |||||||| |     | || | | |||| |       |  |  | |      || ||  
---------------------TTATGATAAGTTCTGCCCATTCTATAAATCAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAGgtctttctctcactcg-attcttactgtacagttggcatcaa-gtttttccggtcattactgctcttcaattagttgttcatatcttgatcaacatgtttac

upper sequence: GRMZM2G128877_T04 (Zea mays), 5'ss of exon 1
lower sequence: EFJ33015 (Selaginella moellendorffii), 5'ss of exon 17
ACAAGTGTTGTTTAATATTAGATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAGgtaagctctcaactagcagtacttctgtaatttttgagtaaatgt---ttttcctgcagattgttttgcaatgatcaaggaaacttattaaacttctgattgt
                     ||| |||||||| || || |||||||| ||||||||||||||||| || ||  |||| |||  |    || | | ||||||| || ||      ||  ||| ||| | |  |    | |||| |   || || |||||                                            
---------------------ATACGATAAGTTTTGTCCGTTCTACAAGTCCGTTTGGATGATGCGAAACATCGTTCATTTCTGCGACCTGTCCACTCAGgtatgcact------gccatacctctttcacgtccttgaaaatttactttctcttgcag--------------------------------------------

upper sequence: GRMZM2G128877_T04 (Zea mays), 5'ss of exon 1
lower sequence: EFJ30330 (Selaginella moellendorffii), 5'ss of exon 18
ACAAGTGTTGTTTAATATTAGATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAGgtaagctctcaactagcagtacttctgtaatttttgagtaaatgtttttcctgcagattgttttgcaatgatcaaggaaacttattaaacttctgattgt
                     ||| |||||||| || || |||||||| ||||||||||||||||| || ||  | || |||  |    || | | ||||||| || ||   | |  |   |||        ||  | |     ||| || |||||                                            
---------------------ATACGATAAGTTTTGTCCGTTCTACAAGTCCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAGgtatgcact--gcca-tacctctttcacgtccttgaaattttactttctcttgcag--------------------------------------------

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|67018748|gb|CO447497.1|CO447497
EST:     CCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGATGGCCAAAAGATAACATACGGTGTC
genomic: CCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAGgtaagctctc ... ttgtttgtagGCTGTGGAGCGGGCAGCTGGTACTGATGGCCAAAAGATAACATACGGTGTC
EST: gi|5871663|gb|AW018134.1|AW018134
EST:     CCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGATGGCCAAAAGATAACATACGGTGTC
genomic: CCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAGgtaagctctc ... ttgtttgtagGCTGTGGAGCGGGCAGCTGGTACTGATGGCCAAAAGATAACATACGGTGTC
EST: gi|4630580|gb|AI621454.1|AI621454
EST:     ATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGATGGCCAAAAGATAACATACGGTGTC
genomic: ATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAGgtaagctctc ... ttgtttgtagGCTGTGGAGCGGGCAGCTGGTACTGATGGCCAAAAGATAACATACGGTGTC
EST: gi|5770168|gb|AI973342.1|AI973342
EST:     CCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGATGGCCAAAAGATAACATACGGTGTC
genomic: CCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAGgtaagctctc ... ttgtttgtagGCTGTGGAGCGGGCAGCTGGTACTGATGGCCAAAAGATAACATACGGTGTC
EST: gi|5804554|gb|AI979524.1|AI979524
EST:     CCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGATGGCCAAAAGATAACATACGGTGTC
genomic: CCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAGgtaagctctc ... ttgtttgtagGCTGTGGAGCGGGCAGCTGGTACTGATGGCCAAAAGATAACATACGGTGTC
EST: gi|4646572|gb|AI491316.2|AI491316
EST:     CCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGATGGCCAAAAGATAACATACGGTGTC
genomic: CCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAGgtaagctctc ... ttgtttgtagGCTGTGGAGCGGGCAGCTGGTACTGATGGCCAAAAGATAACATACGGTGTC
EST: gi|4572998|gb|AI586647.1|AI586647
EST:     CCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGATGGCCAAAAGATAACATACGGTGTC
genomic: CCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAGgtaagctctc ... ttgtttgtagGCTGTGGAGCGGGCAGCTGGTACTGATGGCCAAAAGATAACATACGGTGTC
EST: gi|67018094|gb|CO446843.1|CO446843
EST:     CCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGATGGCCAAAAGATAACATACGGTGTC
genomic: CCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAGgtaagctctc ... ttgtttgtagGCTGTGGAGCGGGCAGCTGGTACTGATGGCCAAAAGATAACATACGGTGTC
EST: gi|61236472|gb|DN586224.1|DN586224
EST:     TGGC-AATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGATGGCCAAAAGATAACATACGGTGTC
genomic: TGGCAAATCAGgtaagctctc ... ttgtttgtagGCTGTGGAGCGGGCAGCTGGTACTGATGGCCAAAAGATAACATACGGTGTC