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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caaacaataatgtttatgttattatcatgtgtacaatatgatctcccttattcttgatgttcctgatggtggagtccttatcacaatggttatgctgcagATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTTCTTCAGTATTCGCCGAATCTGCGATGTAGCGCA

Basic information

species Zea mays
transcript GRMZM2G043350_T02
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G043350_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os06g35530.1 (Oryza sativa), 3'ss of exon 9
------------------------------------------------------------------------------------------caaacaataatgtttatgttattatcatgtgtaca----atatgatctcccttattc--ttgatgttcctgatggtggagtccttatcacaatggttatgctgcagATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTTCTTCAGTATTCGCCGAATCTGCGATGTAGCGCA
                                                                                          || ||||         ||  |||    |||| ||     |||| |  | | | || |  | |  |||||  |||  | | |  |     |||||||  | |||||||||||||||||| |||||||||| ||||||||||||||||| |||||||| |||||||||||||| |||||||||||||  || 
gtatgtggaccactctccttatactgcaccatttaaattcaatacttcattggtggattgagaagtatctccagtttgagtcaacattgtcagacaaatgaagacgtgaaatttcagtgtgcactatgcatataacttgcatcatccgttaggagttccccatgaagtaatttt----gcaatggtattactgcagATCTTCCACAAGCGAATGCCTCCCGAAGCAATAGATCTTGTGTCCCGTCTCCTTCAGTATTCGCCAAATCTGCGATGTACTGCG

upper sequence: GRMZM2G043350_T01 (Zea mays), 3'ss of exon 9
lower sequence: PP1S74_168V6.1 (Physcomitrella patens), 3'ss of exon 8
----caaacaataatgtttatgttattatcatgtgtacaata-tgatctcccttattcttgatgttcctgatggtggagtccttatcacaatggttatgctgcagATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTTCTTCAGTATTCGCCGAATCTGCGATGTAGCGCA
    ||    ||   |  |   || | ||| ||  | ||| | ||   | | ||    ||    |  |  | |  | |  |    |     | || |||  |||| | ||||||||| | ||||||||||||||| ||||||| |||||  | || |||||||| || ||||||||||| || |  || 
atgccagtagatcgaggctcctttgt-atcgtgattgcaagaatggggttctttgggatttgcctaaccaacgtggta--cggggttggtgtcgtgatg--gcagGTTTTCCACAAGCGCATGCCTCCAGAAGCAGTAGATCTGGTTTCAAGGCTACTTCAGTACTCTCCGAATCTGCGGTGCAATGCT
















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|149101574|gb|EE187700.2|EE187700
EST:     AGATAAAAGCATGTCCATGGCACAAG                         ATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTT
genomic: AGATAAAAGCATGTCCATGGCACAAGgtgtgtgcac ... tatgctgcagATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTT
EST: gi|32848647|gb|CD988328.1|CD988328
EST:     ACTATACAGAATTCAAGTTTCCTCAGATAAAAGCATGTCCATGGCACAAG                         ATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTT
genomic: ACTATACAGAATTCAAGTTTCCTCAGATAAAAGCATGTCCATGGCACAAGgtgtgtgcac ... tatgctgcagATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTT
EST: gi|71759011|gb|DR956948.1|DR956948
EST:     ACTATACAGAATTCAAGTTTCCTCAGATAAAAGCATGTCCATGGCACAAG                         ATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTT
genomic: ACTATACAGAATTCAAGTTTCCTCAGATAAAAGCATGTCCATGGCACAAGgtgtgtgcac ... tatgctgcagATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTT
EST: gi|60346873|gb|DN213846.1|DN213846
EST:     ACTATACAGAATTCAAGTTTCCTCAGATAAAAGCATGTCCATGGCACAAG                         ATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTT
genomic: ACTATACAGAATTCAAGTTTCCTCAGATAAAAGCATGTCCATGGCACAAGgtgtgtgcac ... tatgctgcagATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTT
EST: gi|60353976|gb|DN220949.1|DN220949
EST:     TATACAGAATTCAAGTTTCCTCAGATAAAAGCATGTCCATGGCACAAG                         ATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTT
genomic: TATACAGAATTCAAGTTTCCTCAGATAAAAGCATGTCCATGGCACAAGgtgtgtgcac ... tatgctgcagATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTT
EST: gi|71446525|gb|DR827575.1|DR827575
EST:     ACTATACAGAATTCAAGTTTCCTCAGATAAAAGCATGTCCATGGCACAAG                         ATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTT
genomic: ACTATACAGAATTCAAGTTTCCTCAGATAAAAGCATGTCCATGGCACAAGgtgtgtgcac ... tatgctgcagATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTT
EST: gi|78092424|gb|DV520798.1|DV520798
EST:     ACTATACAGAATTCAAGTTTCCTCAGATAAAAGCATGTCCATGGCACAAG                         ATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTT
genomic: ACTATACAGAATTCAAGTTTCCTCAGATAAAAGCATGTCCATGGCACAAGgtgtgtgcac ... tatgctgcagATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTT
EST: gi|60338451|gb|DN205424.1|DN205424
EST:     ACTATACAGAATTCAAGTTTCCTCAGATAAAAGCATGTCCATGGCACAAG                         ATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTT
genomic: ACTATACAGAATTCAAGTTTCCTCAGATAAAAGCATGTCCATGGCACAAGgtgtgtgcac ... tatgctgcagATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTT
EST: gi|166610943|gb|EG292720.1|EG292720
EST:     CTCAGATAAAAGCATGTCCATGGCACAAG                         ATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTT
genomic: CTCAGATAAAAGCATGTCCATGGCACAAGgtgtgtgcac ... tatgctgcagATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTT
EST: gi|60401450|gb|DN234257.1|DN234257
EST:     CTCAGATAAAAGCATGTCCATGGCACAAG                         ATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTT
genomic: CTCAGATAAAAGCATGTCCATGGCACAAGgtgtgtgcac ... tatgctgcagATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTT
EST: gi|60399024|gb|DN231840.1|DN231840
EST:     ACTATACAGAATTCAAGTTTCCTCAGATAAAAGCATGTCCATGGCACAAG                         ATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTT
genomic: ACTATACAGAATTCAAGTTTCCTCAGATAAAAGCATGTCCATGGCACAAGgtgtgtgcac ... tatgctgcagATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttattcttgatgttcctgatggtggagtccttatcacaatggttatgctgcagATCTTCCACAAGAGAATGCCTCCAGAAGCAATAGATCTTGTTTCCCGTCTTCTTCAGTATTCGCCGAATCTGCGATGTAGCGCA
               tcctgat  putative branch site (score: 3)