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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcattcaaacatcaagtgaggggaaccaagcaccctctaaaaactacaatgtgaattgtagttatgcttctaatagtataactttaactgatctcttcagCCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTATGAAATCTATGCTCGGTTGTACAAAGCCTTCCCACGTTTCACGTTTGAG

Basic information

species Zea mays
transcript GRMZM2G097726_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G097726_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os07g08880.2 (Oryza sativa), 3'ss of exon 4
gcattcaaacatcaagtgaggggaaccaagcaccctctaaaaactacaatgtgaatt--gtagttatgcttc-taatagtataactttaactgatctcttcagCCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTATGAAATCTATGCTCGGTTGTACAAAGCCTTCCCACGTT----TCACGTTTGAG--
  || |||    || |        |   ||  |  | | ||      |||    |||  |   || ||      ||   | | | ||  ||| ||||||||||| ||||||||||||||| ||| ||||||||  |||   | |||| | || | || ||  |  |  || |||||||||||||| || |||    | | | |      
--atccaaggtacatgcact----atttagttcttttttaatttggtaatcaccattctgcgattctgaaagacaaacatttcatttggactaatctcttcagcagGTGGAGTCAAAAAGACGGAGAAGGTGACTGCCCCCCAGATTCA-TTGACGAGAT--ACACCTGGATGTACAAAGCCTTCTCAAGTTGGTGTAATGCTATTTAT

upper sequence: GRMZM2G097726_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os07g08880.3 (Oryza sativa), 3'ss of exon 4
gcattcaaacatcaagtgaggggaaccaagcaccctctaaaaactacaatgtgaatt--gtagttatgcttc-taatagtataactttaactgatctcttcagCCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTATGAAATCTATGCTCGGTTGTACAAAGCCTTCCCACGTT----TCACGTTTGAG
     ||  ||        |    |   ||  |  | | ||      |||    |||  |   || ||      ||   | | | ||  ||| ||||||||||| ||||||||||||||| ||| ||||||||  |||   | |||| | || | || ||  |  |  || |||||||||||||| || |||    | | | |    
---cccatccaaggtacatgcactatttagttcttttttaatttggtaatcaccattctgcgattctgaaagacaaacatttcatttggactaatctcttcagCAGGTGGAGTCAAAAAGACGGAGAAGGTGACTGCCCCCCAGATTCA-TTGACGAGAT--ACACCTGGATGTACAAAGCCTTCTCAAGTTGGTGTAATGCTATT-
















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|211224876|gb|FL455272.1|FL455272
EST:     GTAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGAAAAG                         CCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTA
genomic: GTAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGAAAAGgtaagccaca ... atctcttcagCCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTA
EST: gi|78180631|gb|DV550959.1|DV550959
EST:     GTAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGAAAAG                         CCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTA
genomic: GTAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGAAAAGgtaagccaca ... atctcttcagCCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTA
EST: gi|67017898|gb|CO446647.1|CO446647
EST:     GTAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGAAAAG                         CCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTA
genomic: GTAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGAAAAGgtaagccaca ... atctcttcagCCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTA
EST: gi|78074294|gb|DV502728.1|DV502728
EST:     GTAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGAAAAG                         CCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTA
genomic: GTAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGAAAAGgtaagccaca ... atctcttcagCCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTA
EST: gi|4967167|gb|AI691875.1|AI691875
EST:     GTAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGAAAAG                         CTGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTA
genomic: GTAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGAAAAGgtaagccaca ... atctcttcagCCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTA
EST: gi|19822612|gb|BQ048636.1|BQ048636
EST:     GTAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGAAAAG                         CCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTA
genomic: GTAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGAAAAGgtaagccaca ... atctcttcagCCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTA
EST: gi|28909803|gb|CB331108.1|CB331108
EST:     GTAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGAAAAG                         CCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTA
genomic: GTAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGAAAAGgtaagccaca ... atctcttcagCCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTA
EST: gi|18648816|gb|BM497635.1|BM497635
EST:     GCAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGAAAAG                         CCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGC
genomic: GTAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGAAAAGgtaagccaca ... atctcttcagCCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGC
EST: gi|8551650|gb|BE128821.1|BE128821
EST:     GTAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGAAAAG                         CCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTA
genomic: GTAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGAAAAGgtaagccaca ... atctcttcagCCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTA
EST: gi|60354816|gb|DN221789.1|DN221789
EST:     GTAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGAAAAG                         CCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTA
genomic: GTAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGAAAAGgtaagccaca ... atctcttcagCCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTA
EST: gi|60399583|gb|DN232394.1|DN232394
EST:     GTAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGAAAAG                         CCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTA
genomic: GTAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGAAAAGgtaagccaca ... atctcttcagCCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTA
EST: gi|9733234|gb|BE511986.1|BE511986
EST:     GTAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGAAAAG                         CTGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTA
genomic: GTAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGAAAAGgtaagccaca ... atctcttcagCCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTA
EST: gi|18649399|gb|BM498218.1|BM498218
EST:     GTAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGATAAG                         CCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAA
genomic: GTAAGATGGTTGAGAATTCACATGAAGCTACAGCGCAATCAGAAGAAAAGgtaagccaca ... atctcttcagCCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaatgtgaattgtagttatgcttctaatagtataactttaactgatctcttcagCCGGTGGAGTCAAAAAGGCGGCGAAGGTGATGGCCGTGCTGATTAAATTTATGAAATCTATGCTCGGTTGTACAAAGCCTTCCCACGTTTCACGTTTGAG
                                              tctcttc  CT-rich tract
                         taatagtataacttta  TA-rich tract