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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTAATTCAAAGCCTTGTCCCAAATGCAAGCGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAGTTCTGCTGgtaggcattctttcttttatacattttattcttattagttttagcaaatggaaaacatgatagttgtactatcatactacag

Basic information

species Zea mays
transcript GRMZM2G006428_T01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G006428_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os04g41470.1 (Oryza sativa), 5'ss of exon 8
CTAATTCAAAGCCTTGTCCCAAATGCAAGCGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAGTTCTGCTGgtaggcattc---tttcttttatacattttattcttattagttttag---caaatggaaaacatgatagttgtactatcatactacag
||||||||||||||||||| || ||||||||||| ||||||||||| ||||||||||||||||| |||||||| || ||||||||||||||||| |||||||| | | ||    |   | | |  ||  | ||| ||  | ||  ||   || ||||     ||| || |||| |||| |||   |||
CTAATTCAAAGCCTTGTCCTAAGTGCAAGCGGCCCATTGAAAAAAACCAGGGATGCATGCACATTACATGCACACCTCCATGCAAATTTGAGTTTTGCTGgtatgtaatcataatctctctgtttatgctcttcatagcacttgcagtctcatatggcttgtatg-tacttgttctat-ataacgcag

upper sequence: GRMZM2G006428_T01 (Zea mays), 5'ss of exon 8
lower sequence: AT1G65430.1 (Arabidopsis thaliana), 5'ss of exon 8
CTAATTCAAAGCCTTGTCCCAAATGCAAGCGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAGTTCTGCTGgtaggc--attctttcttttatacattttattcttattagttttagcaaatg-gaaaacatgatagttgtactatc-atactacag---------------
| ||||| ||||| ||||| |||||||| ||||| || || ||||| ||||| || ||||| || || ||||| |||||||| |||||||||||||||||||| |   ||    |  || ||  |    | |  ||| | | | || |  |  |     ||  |   | ||||  |  || |  |                
CAAATTCCAAGCCCTGTCCAAAATGCAAACGGCCAATAGAGAAAAACCAGGGTTGTATGCATATTACGTGCACCCCACCATGTAAATTTGAGTTCTGCTGgtaagttgataaagtggttgattaaacaaaatgctat-aatgtcagaagttatgcttttattctctctatacttcctgtaatctaactctgaattggattc

upper sequence: GRMZM2G006428_T01 (Zea mays), 5'ss of exon 8
lower sequence: Vv00s0207g00090.t01 (Vitis vinifera), 5'ss of exon 8
CTAATTCAAAGCCTTGTCCCAAATGCAAGCGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAGTTCTGCTGgtaggcattctttcttttatacattttattcttattagt-tttagcaaatggaaaacatgatagttgtactatc-atactacag----------------
||||||| ||||||||||| || || |||||||| || |||||||| || || || ||||| ||||||||||| || ||||| ||||||||||| |||||||| |  |   | || || | |    ||  || |   || ||||| |  |        |  |   | |  |||| |     ||                 
CTAATTCCAAGCCTTGTCCAAAGTGTAAGCGGCCAATCGAAAAAAACCAAGGTTGTATGCATATCACATGCACACCGCCATGTAAATTTGAGTTTTGCTGgtaagtttatatactcttgttctagatagactcacatgtatttaggaggtctggtctttattccattttgtatccacttggcaacactagcattatcaag

upper sequence: GRMZM2G006428_T01 (Zea mays), 5'ss of exon 8
lower sequence: PP1S9_199V6.1 (Physcomitrella patens), 5'ss of exon 9
CTAATTCAAAGCCTTGTCCCAAATGCAAGCGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAGTTCTGCTGgtaggcattctttcttttatacattttattcttattagttttagcaaatggaaaacatgatagttgtactatcatactacag------------------------------------------------------------------------------------------------------------------------
| ||    || || ||||||||||| ||  |||| || ||||| ||||| || ||||||||||| || ||||| ||||| |||||||||||||| |||||||| | | |   |  |||   || || | ||| |  |||  | |   |||||  |      | |  |||  | ||  || ||                                                                                                                        
CGAACAGCAAACCCTGTCCCAAATGTAAAAGGCCAATCGAAAAGAATCAAGGCTGCATGCACATTACTTGCACACCACCTTGCAAATTTGAGTTTTGCTGgtaagtaatggataattt---caattgaatctaa--agtcatgg---atggatcatgattcattcttaccttaattttatagacacagctacttaagtttacgttgcttcactctgagtatgttgacaccagtggttggtaagtctatcacttataagcaaccaaatttattcactcagttttatttatgcgtttttgacag

upper sequence: GRMZM2G006428_T01 (Zea mays), 5'ss of exon 8
lower sequence: PP1S178_72V6.3 (Physcomitrella patens), 5'ss of exon 8
CTAATTCAAAGCCTTGTCCCAAATGCAAGCGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAGTTCTGCTGgtaggc----------attctttcttttata----------cattttatt---cttattagttttagcaaatggaaaacatgatagttgtactatcat-actacag--------------------------------------------------------------
| ||    || || || || ||||| ||| | || ||||||||||| || || |||||||| || || ||||| ||||| |||||||||||||| |||||||| |           |||||| ||||  |            | || |||    ||| || | |||  |  || ||  ||  ||  || ||   |||| |   |||                                                              
CAAACAGCAAACCCTGCCCTAAATGTAAGAGACCGATTGAAAAAAACCAAGGCTGCATGCATATTACTTGCACACCACCTTGCAAATTTGAGTTTTGCTGgtaagttgtaaatattattcttactttagttaaattaaagttacttaattggatttagtactattaatatgtgaaagtcaccatgcttataaggtcatcaactcagctgctgcaattcatgttgcctcattctcaagtgtagcttttgaaccttgacttctttggcag

upper sequence: GRMZM2G006428_T01 (Zea mays), 5'ss of exon 8
lower sequence: PP1S114_2V6.1 (Physcomitrella patens), 5'ss of exon 8
CTAATTCAAAGCCTTGTCCCAAATGCAAGCGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAGTTCTGCTGgtaggcattct----ttcttttataca-------ttttattcttattagttttagcaaa--tggaaaac--atgatagttgtactatcatactacag------------------------------------------------------------------------------------------------------
| ||    || ||||| ||||| || ||| |||| ||||| ||||| || || |||||||| ||||| ||||||||||| ||||||  |||||| ||||||||  || | |    |  ||||| | |       ||||||| |   |  ||  ||  ||  | |  |||  |||| | | |  ||  |  | ||                                                                                                         
CAAACAGCAAACCTTGCCCCAAGTGTAAGAGGCCAATTGAGAAAAACCAAGGCTGCATGCATATCACTTGCACTCCACCTTGCAAACATGAGTTTTGCTGgtaaacaatttaatgtaattttaaaaaaatagttttttattttcccttattgaagttaagcttgttaacgaatgaaattcggtcttgctcattaagctcatcagtgcagctgcggcagtccatgctattgtattttaacgctttgagtgtctggtttggaaatagtgtcacttacaagagttcactgatactataacag

upper sequence: GRMZM2G006428_T01 (Zea mays), 5'ss of exon 8
lower sequence: PP1S156_28V6.1 (Physcomitrella patens), 5'ss of exon 8
CTAATTCAAAGCCTTGTCCCAAATGCAAGCGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAGTTCTGCTGgtaggcattctttcttttatacattttattcttattagttttagcaaatggaaaacatgatagttgtactatcatactacag------------------------------------------------------------------------------------
| ||    || || || |||||||| ||  |||| ||||| ||||| || || || |||||||| || ||||| || || |||||||||||||| |||||||| |  |  |   ||||||    | |      || | |      ||||  |       |    |  |  ||  | ||  ||                                                                                    
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|76281609|gb|DV021177.1|DV021177
EST:     GGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAGTTCTGCTG                         GCTATGTCTTGGTCCATGGTCAGAGCATGGAGAGAGGACTGGTGGATTTTA
genomic: GGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAGTTCTGCTGgtaggcattc ... catactacagGCTATGTCTTGGTCCATGGTCAGAGCATGGAGAGAGGACTGGTGGATTTTA
EST: gi|211292139|gb|FL375498.1|FL375498
EST:     GGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAGTTCTGCTG                         GCTATGTCTTGGTCCATGGTCAGAGCATGGAGAGAGGACTGGTGGATTTTA
genomic: GGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAGTTCTGCTGgtaggcattc ... catactacagGCTATGTCTTGGTCCATGGTCAGAGCATGGAGAGAGGACTGGTGGATTTTA