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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggttgaatctattctttcttcaatggatccttcatcatactgtttgagagaaaaaaaatccttcatcatactacaacccagggatcttattgtacattgttctctcaatttagtaaagtttttatgttcttcacgcctgatcattaagttctctctcaacttgcagCAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGTGAGGCAGCACGTAGTGCTCTAAGTTCAGCCTTCTGATGAACATAGGGCG

Basic information

species Zea mays
transcript GRMZM2G174730_T01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G174730_T01 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os05g42330.1 (Oryza sativa), 3'ss of exon 11
gttggttgaatctattctttcttcaatggatccttcatcatactgtttgagagaaaaaaaatccttcatcatactacaacccagggatcttattgtacattgttctctcaatttagtaaagtttttatgttcttcacgcctgatcattaagttctctctcaacttgcagCAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGTGAGGCAGCACGTAGTGCTCTAAGTTCAGCCTTCTGATGAACATAGGGCG-
                                                                        |  | | |   |  ||  |    ||||||    ||     ||||| || |||| ||    ||    | ||| |||| | | ||| |||||| |||||||||| |||||||| |||||||||||||||||||| |||||||||||||||||||| |||||| ||||||| || || || |||||||||| | | | |  
------------------------------------------------------------------aggttcaacatagcatggacattcttacatacatttcaatcgtttcttagtcaaattttcat---tttagatcatgaccattgattgctcactcaacatgcagCAAGTATACATGTACTTCCGTGGAAGTGGAAAAGCCGCAGAGATGAAACGTGAGGCGGCACGTGGTGCTCTGAGCTCCGCATTCTGATGAA-ACATGCCTT

upper sequence: GRMZM2G174730_T01 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA07G31090.3 (Glycine max), 3'ss of exon 11
gttggttgaatctattctttcttcaatggatccttcatcatactgtttgagagaaaaaaaatccttcatcatactacaacccagggatcttattgtacattgttctctcaatttagtaaagtttttatgttcttcacgcctgatcattaagttctctctcaact-tgcagCAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGTGAGGCAGCACGTAGTGCTCTAAGTTCAGCCTTCTGATGAACATAGGGCG
                                            |||||    |  | |  || |  |   ||| |  | |    |  |  ||    ||   || |   |||    | |  |  ||| |   |  ||  ||  ||| |   |  |   |   || | |||||||| |||||||| |||||||| ||||| || ||||| ||||||||||| || || ||  |  | ||  | ||  | ||  | ||||| |   |    |
--------------------------------------------gtttg----attacacttcttgaactttacaatcatcttaag--cacatccaccaccattttg--aatgacatgatttccttacgacat--acctctactcactgtttctttggtttgctatacagCAAGTATACATGTACTTCCGTGGCAGTGGTAAGGCTGCTGAGATGAAACGGGAAGCCGCCAGGGGAGCAATGAGGGCTGCAATATGATGCATCAATCATG
















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|149104176|gb|EE289610.2|EE289610
EST:     GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAG                         CAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
genomic: GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAGgttggttgaa ... caacttgcagCAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
EST: gi|71322126|gb|DR797758.1|DR797758
EST:     GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAG                         CAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
genomic: GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAGgttggttgaa ... caacttgcagCAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
EST: gi|211044188|gb|FL461688.1|FL461688
EST:     GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAG                         CAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
genomic: GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAGgttggttgaa ... caacttgcagCAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
EST: gi|37400724|gb|CF637721.1|CF637721
EST:     GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAG                         CAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
genomic: GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAGgttggttgaa ... caacttgcagCAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
EST: gi|113702575|gb|EE680079.1|EE680079
EST:     GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAG                         CAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
genomic: GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAGgttggttgaa ... caacttgcagCAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
EST: gi|78112245|gb|DV530639.1|DV530639
EST:     GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAG                         CAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
genomic: GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAGgttggttgaa ... caacttgcagCAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
EST: gi|78180134|gb|DV550507.1|DV550507
EST:     GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAG                         CAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
genomic: GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAGgttggttgaa ... caacttgcagCAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
EST: gi|76927276|gb|DV171212.1|DV171212
EST:     GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAG                         CAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
genomic: GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAGgttggttgaa ... caacttgcagCAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
EST: gi|5847119|gb|AW000198.1|AW000198
EST:     GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAG                         CAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
genomic: GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAGgttggttgaa ... caacttgcagCAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
EST: gi|76289053|gb|DV028621.1|DV028621
EST:     GATTTGGCTTGGTCTGCCTTGGATCACTTCTGAGCATCGGTGTCATTCAG                         CAGGTCTACATGTATTTCCGTGAAAGTGGAAAAGCTGCAGAGATGAAACGT
genomic: GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAGgttggttgaa ... caacttgcagCAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
EST: gi|15082749|gb|BI389433.1|BI389433
EST:     GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAG                         CAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
genomic: GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAGgttggttgaa ... caacttgcagCAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
EST: gi|60396504|gb|DN229373.1|DN229373
EST:     GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAG                         CAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
genomic: GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAGgttggttgaa ... caacttgcagCAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
EST: gi|211354782|gb|FL462372.1|FL462372
EST:     ATCACTTCTGAGCATCGGTGTCATTCAG                         CAAGTCTACATGTATTTCCGTGGAAGTGGAAAAAGCTGCAGAGATGAAACG
genomic: ATCACTTCTGAGCATCGGTGTCATTCAGgttggttgaa ... caacttgcagCAAGTCTACATGTATTTCCGTGGAAGTGG-AAAAGCTGCAGAGATGAAACG
EST: gi|32851209|gb|CD990890.1|CD990890
EST:     GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAG                         CAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
genomic: GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAGgttggttgaa ... caacttgcagCAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
EST: gi|37374257|gb|CF623473.1|CF623473
EST:     GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAG                         CAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
genomic: GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAGgttggttgaa ... caacttgcagCAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
EST: gi|78081464|gb|DV509876.1|DV509876
EST:     GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAG                         CAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
genomic: GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAGgttggttgaa ... caacttgcagCAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
EST: gi|76289052|gb|DV028620.1|DV028620
EST:     GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAG                         CAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
genomic: GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAGgttggttgaa ... caacttgcagCAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
EST: gi|5343187|gb|AI795372.1|AI795372
EST:     GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAG                         CAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
genomic: GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAGgttggttgaa ... caacttgcagCAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
EST: gi|15208939|gb|BI430823.1|BI430823
EST:     TTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAG                         CAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
genomic: TTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAGgttggttgaa ... caacttgcagCAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
EST: gi|91876330|gb|EB406287.1|EB406287
EST:     GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAG                         CAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
genomic: GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAGgttggttgaa ... caacttgcagCAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
EST: gi|8551590|gb|BE128935.1|BE128935
EST:     GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAG                         CAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT
genomic: GATTTGGCTTGTTCTGCCTTGAATCACTTCTGAGCATCGGTGTCATTCAGgttggttgaa ... caacttgcagCAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtaaagtttttatgttcttcacgcctgatcattaagttctctctcaacttgcagCAAGTCTACATGTATTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAACGTGAGGCAGCACGTAGTGCTCTAAGTTCAGCCTTCTGATGAACATAGGGCG
                       gcctgat  putative branch site (score: 4)
                                     ttctctctcaactt  putative PPT
       tttttatgtt  TA-rich tract