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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGTGAAGAGCCACAAGAACCTGCCAAACACCATAATAGATTGGGACCAGCAGGCCTTGCATTGCATTATGCTAATATCATCAATCAGATTGACAATCTTgtaagtccacatactcttctagagatcttatcgaactatatcgttattagaagataacttggtgaacattgtacatcaaccatattcattgcaataagtctccaacttcagttttttcacaatattttaataaggattggtcaattggtag

Basic information

species Zea mays
transcript GRMZM2G097502_T01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G097502_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os05g35530.1 (Oryza sativa), 5'ss of exon 9
CAGTGAAGAGCCACAAGAACCTGCCAAACACCATAATAGATTGGGACCAGCAGGCCTTGCATTGCATTATGCTAATATCATCAATCAGATTGACAATCTTgtaagtccacatactcttctagagatctta-----tcga--actatatcgttat-tagaagataacttggtgaacattgta-catcaaccatattcattgcaataagtctccaacttcagttttttcacaatattttaataaggattggtcaattggtag
|||||||| |||||||||||| || |||||||| |||||||||||||||||||||||||||||||||||||| |||||||||||||||||||| | |||||||||| |||| | ||| ||  | ||  ||     |  |  ||||| | || || |||||||||| |     || |||  | || || | || | |||                                                              
CAGTGAAGCGCCACAAGAACCAGCTAAACACCACAATAGATTGGGACCAGCAGGCCTTGCATTGCATTATGCAAATATCATCAATCAGATTGATACTCTTgtaagttcacaaaatctgcttaacattctaaatttttaattactattttgtcatctagaagataaatcaaccaatatttcaacaccagcaatgt-catgag-----------------------------------------------------------

upper sequence: GRMZM2G097502_T01 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA06G16680.1 (Glycine max), 5'ss of exon 7
CAGTGAAGAGCCACAAGAACCTGCCAAACACCATAATAGATTGGGACCAGCAGGCCTTGCATTGCATTATGCTAATATCATCAATCAGATTGACAATCTTgtaagtccacatactcttctagagatcttatcgaactatatcgttattagaagataacttggtgaacattgtacatcaaccatattcattgcaat-aagtctccaacttcagttttttcacaatattttaataaggattggtcaattggtag
|    ||         | ||     |   | |   | |||||||| || ||||||||||| ||||||||||| |||||  |   ||| ||||| | |||||| |||  |  |    || ||   |  | ||    | |||||  | ||          ||  ||  | ||   | | |||||| |       |||  ||| || ||  |   ||                                      
CCACAAACCATTCATTGGACACATGAGCAATCGCCAAAGATTGGGCCCTGCAGGCCTTGCTTTGCATTATGCAAATATAGTGCTTCAAATTGATACTCTTgtgagttaatct-tcattgtatttacttcatt---ccatatctgtttt---------ttttttgtgccttac-cttgaaccatgtgagaattaattgagtttctaaagttgctt--------------------------------------

upper sequence: GRMZM2G097502_T01 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA05G33040.1 (Glycine max), 5'ss of exon 8
CAGTGAAGAGCCACAAGAACCTGCCAAACACCATAATAGATTGGGACCAGCAGGCCTTGCATTGCATTATGCTAATATCATCAATCAGATTGACAATCTTgtaagtccacatactcttctagagatcttatcgaactatatcgttattagaagataacttggtgaacattgtacatcaaccatattcattgcaataagtctccaacttcagttttttcacaatattttaataaggattggtcaattggtag
|  | ||     |    || |   ||     |   | | |||||| || ||||||||||| |||||||||||||||||  |    || ||||| | ||||||||||        |||||      | |  |    |||| || | ||| |  | | | |     |||| | | | | | | ||||   ||    ||| | | |||||  |||  |                                    
CCATAAACCATTAATTCAAACCATCAGCAGTCGCCAAAAATTGGGTCCTGCAGGCCTTGCTTTGCATTATGCTAATATAGTGCTCCAAATTGATACTCTTgtaagtgt-----ttcttc------tttatttagtctatttcataatttg--gtttagt--acaaacagtatgctttatctatatctttttggttaaatgttcaactagagtaat------------------------------------

upper sequence: GRMZM2G097502_T01 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA04G38370.1 (Glycine max), 5'ss of exon 8
CAGTGAAGAGCCACAAGAACCTGCCAAACACCATAATAGATTGGGACCAGCAGGCCTTGCATTGCATTATGCTAATATCATCAATCAGATTGACAATCTTgtaagtccacatactcttctagagatcttatcgaactatatc-gttattagaagataacttggtgaacattgtacatcaaccatattcattgcaataagtctccaacttcagttttttcacaatattttaataaggattggtcaattggtag
|    ||         | ||     |   | |   | |||||||| || ||||||||||| ||||||||||| |||||  |   ||| ||||| | |||||| |||  |  |    || ||   |  | ||    | || || ||| ||    | |    ||    || ||| ||         ||| ||||     ||| || ||  |                                           
CCCCAAACCATTCATTGGACGCATGAGCAATCGCCAAAGATTGGGCCCTGCAGGCCTTGCTTTGCATTATGCAAATATAGTGCTTCAAATTGATACTCTTgtgagttaatct-tcattgtatttacttcatt---ccatgtctgttcttttttgtttttgtgccttactttgaaccatgtgagaatttattg-----agtttctaaagt-------------------------------------------

upper sequence: GRMZM2G097502_T01 (Zea mays), 5'ss of exon 8
lower sequence: Vv07s0031g02970.t01 (Vitis vinifera), 5'ss of exon 8
CAGTGAAGAGCCACAA--GAACCTGCCAAACACCATAATAGATTGGGACCAGCAGGCCTTGCATTGCATTATGCTAATATCATCAATCAGATTGACAATCTTgtaagtccacatactcttctagagatcttatcgaactatatcgttattagaagataacttggtgaacattgtacatcaaccatatt-cattgcaataagtctccaacttcagttttttcacaatattttaataaggattggtcaattggtag
      | | |   ||  | | |||  |   | ||| | ||||||||||| || || ||||||||||||||||| |||||  | |  || |||||    ||||| |||  |    ||||  |   ||| |  |     |||||  || |  | |  ||  ||  |     || | ||   |   | ||  ||   |   |||  | ||||||  |  ||                                   
------ACACCTGTAAATGGATCTGTGAGTGATCATCAAAGATTGGGACCTGCTGGTCTTGCATTGCATTATGCAAATATTGTTATGCAAATTGATGCCCTTGTGAgtatatgatctctgtt---gatttcct-----tatatttttttctgcatgtactttcat-----ttattcagttattttcttgtatcttaggcagttacaaacttctataatt-----------------------------------

upper sequence: GRMZM2G097502_T01 (Zea mays), 5'ss of exon 8
lower sequence: PP1S54_228V6.1 (Physcomitrella patens), 5'ss of exon 8
CAGTGAAGAGCCACAAGAACCTGCCAAACACCATAATAGA---TTGGGACCAGCAGGCCTTGCATTGCATTATGCTAATATCATCAATCAGATTGACAATCTTgtaagtccacatactcttctagagatcttatcgaactatatcgttattagaagataacttggtgaacattgtacatcaaccatattcatt-gcaataagtctccaacttcagttttttcacaatattttaataaggattggtcaattggtag
   |||  ||||  | ||    |  |||    ||  | ||   ||||| ||| | ||  | ||  |||||||||||||||||||||||||||||||||  || ||  ||         |     ||  |   |   || || |  |  |||    |||    |  | |   ||  |  |   |  |  |     |  ||| |                                                     
---TGAGAAGCCTGAGGAGGAGGAAAAAAGAAATGCTGGAAAATTGGGTCCATCGGGTTTGGCCCTGCATTATGCTAATATCATCAATCAGATTGACAGCCTGgtctgtgtcttggtgccatctgaccttcaaataaaatagagtgc-attg---gattctctttttattttttgatgtttgctttgcttggaagttataggggcta------------------------------------------------

upper sequence: GRMZM2G097502_T01 (Zea mays), 5'ss of exon 8
lower sequence: PP1S15_33V6.1 (Physcomitrella patens), 5'ss of exon 9
CAGTGAAGAGCCACAAGAACCTGCCAAACACCATAATAGA---TTGGGACCAGCAGGCCTTGCATTGCATTATGCTAATATCATCAATCAGATTGACAATCTTgtaagtccacatactcttctagagatcttatcgaactatatcgttattagaagataacttggtgaacattgtacatcaaccatattcattgcaataagtctccaacttcagttttttcacaatattttaataaggattggtcaattggtag
   ||| | |||  | |||   || |||    ||  | ||    ||||| || | ||| | ||  | ||||||||||||||||||||||| |||||||| || ||  ||     |   ||| |  |      || |     | | | | || ||| |  |    || |||  || ||        ||| | ||  ||   ||||  |  ||                                           
---TGAGGCGCCTGAGGAAGAGGCAAAAAGGAATGCTGGAAAGCTGGGATCATCGGGCTTGGCCCTCCATTATGCTAATATCATCAATCAAATTGACAACCTGgtttgtgtctttttgctttttcactctgaatagtttagtgttggt-ttcgaataggat---gtaaaccctggaccattgt-gtatgcgtt-taac--gtctttagatt-------------------------------------------

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|78090767|gb|DV519141.1|DV519141
EST:     CAGGCCTTGCATTGCATTATGCTAATATCATCAATCAGATTGACAATCTT                         GTTTCTCGATCATGTGCAATGCCTCCAAATGCAAGGGATACCTTATATCAT
genomic: CAGGCCTTGCATTGCATTATGCTAATATCATCAATCAGATTGACAATCTTgtaagtccac ... caattggtagGTTTCTCGATCATGTGCAATGCCTCCAAATGCAAGGGATACATTATATCAT