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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTAATTCAAAGCCTTGTCCCAAATGCAAACGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAGTTCTGCTGgtaagcattcttactttatgcattttattcttattagtgcttgcaaatgaaacaaattgatggctgcgctatcttactacag

Basic information

species Zea mays
transcript GRMZM5G876621_T02
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G876621_T02 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os04g41470.1 (Oryza sativa), 5'ss of exon 8
CTAATTCAAAGCCTTGTCCCAAATGCAAACGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAGTTCTGCTGgtaagcattcttactttatgcattt-tattcttattagtgcttgcaa----atgaaacaaattgatggctgcgctatcttactacag
||||||||||||||||||| || ||||| ||||| ||||||||||| ||||||||||||||||| |||||||| || ||||||||||||||||| |||||||| | | || || | | |   ||| |  ||||  |||  ||||||     ||    |   |   |   ||  |||| | ||  |||
CTAATTCAAAGCCTTGTCCTAAGTGCAAGCGGCCCATTGAAAAAAACCAGGGATGCATGCACATTACATGCACACCTCCATGCAAATTTGAGTTTTGCTGgtatgtaatcataatctctctgtttatgctcttcatagcacttgcagtctcatatggcttgtatgtacttgttctatataac-gcag

upper sequence: GRMZM5G876621_T02 (Zea mays), 5'ss of exon 8
lower sequence: AT1G65430.1 (Arabidopsis thaliana), 5'ss of exon 8
CTAATTCAAAGCCTTGTCCCAAATGCAAACGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAGTTCTGCTGgtaagc------attcttactttatgcattttattct--tattagtgcttgcaaatgaaacaaattgatggctgc-gctatcttactacag---------
| ||||| ||||| ||||| |||||||||||||| || || ||||| ||||| || ||||| || || ||||| |||||||| ||||||||||||||||||||||       | |  |   |||  ||   |  | |  | | ||   ||     |  |     |  ||   | | |  |||| |||             
CAAATTCCAAGCCCTGTCCAAAATGCAAACGGCCAATAGAGAAAAACCAGGGTTGTATGCATATTACGTGCACCCCACCATGTAAATTTGAGTTCTGCTGgtaagttgataaagtggttgattaaacaaaatgctataatgtcagaagttatgcttttattctctctatacttcctgtaatctaactctgaattggattc

upper sequence: GRMZM5G876621_T02 (Zea mays), 5'ss of exon 8
lower sequence: Vv00s0207g00090.t01 (Vitis vinifera), 5'ss of exon 8
CTAATTCAAAGCCTTGTCCCAAATGCAAACGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAGTTCTGCTGgtaagcattcttact-ttatgcattttattcttattagtgcttgcaaa---tgaaacaaattgatggctgcg-ctatcttactacag-------------
||||||| ||||||||||| || || || ||||| || |||||||| || || || ||||| ||||||||||| || ||||| ||||||||||| ||||||||||  |   |||| || | |    ||  || |   ||  ||   |    ||      |||      ||   | |  |  | |||              
CTAATTCCAAGCCTTGTCCAAAGTGTAAGCGGCCAATCGAAAAAAACCAAGGTTGTATGCATATCACATGCACACCGCCATGTAAATTTGAGTTTTGCTGgtaagtttatatactcttgttctagatagactcacatgtatttaggaggtctggtctttattccattttgtatccacttggcaacactagcattatcaag

upper sequence: GRMZM5G876621_T02 (Zea mays), 5'ss of exon 8
lower sequence: PP1S9_199V6.1 (Physcomitrella patens), 5'ss of exon 9
CTAATTCAAAGCCTTGTCCCAAATGCAAACGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAGTTCTGCTGgtaagcatt------------------cttactttatgcat---------tttattctta--ttagtgcttgcaaatgaaacaaattgatggctgcgctatcttactacag-------------------------------------------------------------------------------------
| ||    || || ||||||||||| ||| |||| || ||||| ||||| || ||||||||||| || ||||| ||||| |||||||||||||| |||||||||| | |                  || |  | ||| ||         || |||||||  ||| |  ||  | |   | | | || | |  | || |   | |||                                                                                         
CGAACAGCAAACCCTGTCCCAAATGTAAAAGGCCAATCGAAAAGAATCAAGGCTGCATGCACATTACTTGCACACCACCTTGCAAATTTGAGTTTTGCTGgtaagtaatggataatttcaattgaatctaaagtcatggatggatcatgattcattcttaccttaat-tttatagacacagctacttaa-gtttacgttgcttcactctgagtatgttgacaccagtggttggtaagtctatcacttataagcaaccaaatttattcactcagttttatttatgcgtttttgacag

upper sequence: GRMZM5G876621_T02 (Zea mays), 5'ss of exon 8
lower sequence: PP1S178_72V6.3 (Physcomitrella patens), 5'ss of exon 8
CTAATTCAAAGCCTTGTCCCAAATGCAAACGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAGTTCTGCTGgtaagc----------attcttactttatgcattttattctta-ttagtgcttgcaaatgaaacaaattgatggctg-cgctatcttactacag--------------------------------------------------------------------------
| ||    || || || || ||||| ||  | || ||||||||||| || || |||||||| || || ||||| ||||| |||||||||||||| ||||||||||           ||||||||||||   |  |||   ||| ||| |       | |   |  |||   ||   | | | ||  |  ||  |                                                                          
CAAACAGCAAACCCTGCCCTAAATGTAAGAGACCGATTGAAAAAAACCAAGGCTGCATGCATATTACTTGCACACCACCTTGCAAATTTGAGTTTTGCTGgtaagttgtaaatattattcttactttagttaaattaaagttacttaattggatttagtactattaatatgtgaaagtcaccatgcttataaggtcatcaactcagctgctgcaattcatgttgcctcattctcaagtgtagcttttgaaccttgacttctttggcag

upper sequence: GRMZM5G876621_T02 (Zea mays), 5'ss of exon 8
lower sequence: PP1S114_2V6.1 (Physcomitrella patens), 5'ss of exon 8
CTAATTCAAAGCCTTGTCCCAAATGCAAACGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAGTTCTGCTGgtaagcattcttactttat------------gcattttatt----cttatt--agt---gcttgcaaatgaaacaaattgatggctgcgctat---cttactacag---------------------------------------------------------------------------------------------
| ||    || ||||| ||||| || ||  |||| ||||| ||||| || || |||||||| ||||| ||||||||||| ||||||  |||||| ||||||||| || | | |  | ||            |  |||||||    ||||||  |||   |||||  || |||  |||||      ||| |  |   || |  |  |                                                                                             
CAAACAGCAAACCTTGCCCCAAGTGTAAGAGGCCAATTGAGAAAAACCAAGGCTGCATGCATATCACTTGCACTCCACCTTGCAAACATGAGTTTTGCTGgtaaacaatttaatgtaattttaaaaaaatagttttttattttcccttattgaagttaagcttgttaacgaatgaaattcggtcttgctcattaagctcatcagtgcagctgcggcagtccatgctattgtattttaacgctttgagtgtctggtttggaaatagtgtcacttacaagagttcactgatactataacag

upper sequence: GRMZM5G876621_T02 (Zea mays), 5'ss of exon 8
lower sequence: PP1S156_28V6.1 (Physcomitrella patens), 5'ss of exon 8
CTAATTCAAAGCCTTGTCCCAAATGCAAACGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAGTTCTGCTGgtaagcattctt-actttatgcattttattcttattagtgcttgcaaatgaa-------acaaattgatggctgcgct-atcttactacag---------------------------------------------------------------------------
| ||    || || || |||||||| ||| |||| ||||| ||||| || || || |||||||| || ||||| || || |||||||||||||| ||||||||||  |  |  | |||||    | |      || | ||  |  ||||  |       ||  || |||    |  || |  ||  |   |                                                                           
CAAACAGCAAACCCTGCCCCAAATGTAAAAGGCCAATTGAGAAAAACCAAGGGTGTATGCACATTACTTGCACACCTCCTTGCAAATTTGAGTTTTGCTGgtaagtctaatagattttattgggtctcgaggaatgaatgggtttaaattcactctccaactcatcgataatggttcttaagtttttgttgctttagcctgaatgggttgaaagctggtcattgataagacacttacttatgagcaacccacttttgtttctaaag

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|87155958|gb|DY400747.1|DY400747
EST:     GGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAGTTCTGCTG                         GCTATGTCTTGGTCCATGGTCAGAGCATGGAGAGAGGACTGGTGGATTTTA
genomic: GGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAGTTCTGCTGgtaagcattc ... cttactacagGCTATGTCTTGGTCCATGGTCAGAGCATGGAGAGAGGACTGGTGGATTTTA