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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtatatttgcaattaatacttaccagagttgcattgtttcgttaacaaataagcagagatgtcagtatcctacctaagatgctgatttgctttgaaacatggtagaactaatgctctgtccctcactttgcgtcatgctaatgctattaatgggacttctttcgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTGGGAACATACTCGTCTCTGTCAAAGATAATCCAGAACTACACATGATACA

Basic information

species Zea mays
transcript GRMZM2G105192_T03
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G105192_T03 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os02g01100.1 (Oryza sativa), 3'ss of exon 11
gtatgtatatttgcaattaatacttaccagagttgcattgtttcgttaacaaataagcagagatgtcagtatcctacctaagatgctgatttgctttgaaacatggtagaactaatgctctgtccctcactttgcgtcatgctaatgctattaatgggacttctttcgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTGGGAACATACTCGTCTCTGTCAAAGATAATCCAGAACTACACATGATACA
                                                                    |||    |     ||     |  ||  |   || | ||    |  ||||  |  |   | | ||  |   |   |        || || | |||     |||   ||| | ||||  ||||| |||||||||||||| ||||||||||||||||| ||||| |||||||| || || || ||||| |||||||||||||| |||    
--------------------------------------------------------------------gtacaaaaatatggaaatgaaaatgtgtaataatagggagaga--aatgagcgatgtattaattcactgtacattg-------tattgtggcttt----gatttacagATTGCAGCTTGCTCATTCATCATCGTGGTAGGGGTTTGCTGCGCTTGCGTGGGGACATACTCATCCCTCTCCAAGATTATCCAGAACTACACCTGACCTG
















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|91876287|gb|EB406244.1|EB406244
EST:     CTTGCGCGTGCTTTTTAGCAATTTTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGTTCGTTCTTCTTCGTGGTTGGGGTTTGTTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|18173199|gb|BM348587.1|BM348587
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|16926851|gb|BM079919.1|BM079919
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|71446062|gb|DR827112.1|DR827112
EST:     CTTGCGCGTGCTTTTTAGCAATTTTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|18162838|gb|BM332677.1|BM332677
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|110220376|gb|EC902274.1|EC902274
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|110522223|gb|EE026407.1|EE026407
EST:     CTTGCGCGTGCTTTTTAGCAATTTTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|29544356|gb|CB604736.1|CB604736
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|16922011|gb|BM075387.1|BM075387
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|113700925|gb|EE678429.1|EE678429
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|76288379|gb|DV027947.1|DV027947
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|18166790|gb|BM336629.1|BM336629
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|17929411|gb|BM266371.1|BM266371
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|17932564|gb|BM269524.1|BM269524
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|71426676|gb|DR807726.1|DR807726
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|67019146|gb|CO447895.1|CO447895
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|4967071|gb|AI691821.1|AI691821
EST:     GGAGAAAAGTGACCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: GGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtccctcactttgcgtcatgctaatgctattaatgggacttctttcgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTGGGAACATACTCGTCTCTGTCAAAGATAATCCAGAACTACACATGATACA
                           tattaat  putative branch site (score: 2)
                                      cttctttc  putative PPT
                           tattaat  TA-rich tract