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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtattttctatatttgtttcagctgcagcacttcatttcttttaactctattatcgccgaaatgaaatcacttctgaattctgttattatgtgccactgatttaccagATGTGGATATCGAAGGAGGAGTACGACGAGTCTGGCCCGGCAATTGTTCACCGGAAGTGCTTCTAG

Basic information

species Zea mays
transcript GRMZM2G067985_T04
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G067985_T09 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os05g01600.2 (Oryza sativa), 3'ss of exon 4
-------gtatgtattt-tctatatttgtttcagc---tgcagcacttcatttcttttaac---tctattatcgccgaaatgaaatcacttctgaattctgttattatgtgccactgatttaccagATGTGGATATCGAAGGAGGAGTACGACGAGTCTGGCCCGGCAATTGTTCACCGGAAGTGCTTCTAG----------------------------------
       |    | ||  ||| || ||| | ||     ||    |||| | ||  |  |||   | | | ||     |  ||   | || ||| || |||||| | ||||     || ||| | ||||||||||||| ||||| ||||||||||| |||||||| |||||||| ||| |||| |||||||                                    
gtaggaagctcctgttcatctgtagttgctacaataattgttaaactttactttctggaacatatgtctcatgattaacctgtggtaacatctaaaatctgttgt-atgtcgtgttggtttgc-agATGTGGATATCAAAGGACGAGTACGACGAATCTGGCCCAGCAATTGTCCACAGGAAATGCTTCTGATTTTCTCAAGTGCTCTGCTCTTGTCATCTGTAGT
















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|60345926|gb|DN212899.1|DN212899
EST:     GTGTCTGGATAGGAGGGTTGATCCTAGCCTCGCTCAGCACTTTCCAACAG                         ATGTGGATATCGAAGGAGGAGTACGACGAGTCTGGCCCGGCAATTGTTCAC
genomic: GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAGgtatgtattt ... gatttaccagATGTGGATATCGAAGGAGGAGTACGACGAGTCTGGCCCGGCAATTGTTCAC
EST: gi|5055728|gb|AI734615.1|AI734615
EST:     GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAG                         ATGTGGATATCGAAGGAGGAGTACGACGAGTCTGGCCCGGCAATTGTTCAC
genomic: GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAGgtatgtattt ... gatttaccagATGTGGATATCGAAGGAGGAGTACGACGAGTCTGGCCCGGCAATTGTTCAC
EST: gi|61117780|gb|DN558741.1|DN558741
EST:     GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAG                         ATGTGGATATCGAAGGAGGAGTACGACGAGTCTGGCCCGGCAATTGTTCAC
genomic: GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAGgtatgtattt ... gatttaccagATGTGGATATCGAAGGAGGAGTACGACGAGTCTGGCCCGGCAATTGTTCAC
EST: gi|5816331|gb|AI987247.1|AI987247
EST:     GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAG                         ATGTGGATATCGAAGGAGGAGTACGACGAGTCTGGCCCGGCAATTGTTCAC
genomic: GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAGgtatgtattt ... gatttaccagATGTGGATATCGAAGGAGGAGTACGACGAGTCTGGCCCGGCAATTGTTCAC
EST: gi|31363976|gb|CD448331.1|CD448331
EST:     GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAG                         ATGTGGATATCGAAGGAGGAGTACGACGAGTCTGGCCCGGCAATTGTTCAC
genomic: GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAGgtatgtattt ... gatttaccagATGTGGATATCGAAGGAGGAGTACGACGAGTCTGGCCCGGCAATTGTTCAC
EST: gi|33095130|gb|CF055124.1|CF055124
EST:     GTGTCTGGATAGGAGGGTCCATCCTAGCCTCGCTGAGCACTTTCCAACAG                         ATGTGGATATCTAAGGAGGAGT
genomic: GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAGgtatgtattt ... gatttaccagATGTGGATATCGAAGGAGGAGT
EST: gi|32850143|gb|CD989824.1|CD989824
EST:     GTGTCTGGATAGGAGGGTCCATCCTAGCCTCGCTGAGCACTTTCCAACAG                         ATGTGGATATCTAAGGAGGAGTA
genomic: GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAGgtatgtattt ... gatttaccagATGTGGATATCGAAGGAGGAGTA
EST: gi|33101849|gb|CF061809.1|CF061809
EST:     GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAG                         ATGTGGATATCGAAGGAGGAGTAC
genomic: GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAGgtatgtattt ... gatttaccagATGTGGATATCGAAGGAGGAGTAC
EST: gi|4776292|gb|AI665295.1|AI665295
EST:     GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTNTCCAACAG                         ATGTGGATATCGAAGGAGGAGTACGACGAGTCTGGCCCGG
genomic: GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAGgtatgtattt ... gatttaccagATGTGGATATCGAAGGAGGAGTACGACGAGTCTGGCCCGG
EST: gi|31612194|gb|CD568816.1|CD568816
EST:     GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAG                         ATGTGGATATCGAAGG
genomic: GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAGgtatgtattt ... gatttaccagATGTGGATATCGAAGG
EST: gi|60345925|gb|DN212898.1|DN212898
EST:     GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAG                         ATGTGGATATCGAAGGAGGAGTACGACGAGTCTGGCCCGGCAATTGTTCAC
genomic: GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAGgtatgtattt ... gatttaccagATGTGGATATCGAAGGAGGAGTACGACGAGTCTGGCCCGGCAATTGTTCAC
EST: gi|60345930|gb|DN212903.1|DN212903
EST:     GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAG                         ATGTGGATATCGAAGGAGGAGTACGACGAGTCTGGCCCGGCAATTGTTCAC
genomic: GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAGgtatgtattt ... gatttaccagATGTGGATATCGAAGGAGGAGTACGACGAGTCTGGCCCGGCAATTGTTCAC
EST: gi|33102878|gb|CF062838.1|CF062838
EST:     GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAG                         ATGTGGATATCGAAGGAGGAGTAC
genomic: GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAGgtatgtattt ... gatttaccagATGTGGATATCGAAGGAGGAGTAC
EST: gi|33101196|gb|CF061156.1|CF061156
EST:     GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAG                         ATGTGGATATCGAAGGAGGAGT
genomic: GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAGgtatgtattt ... gatttaccagATGTGGATATCGAAGGAGGAGT
EST: gi|211469312|gb|FL184440.1|FL184440
EST:     GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAG                         ATGTGGATATCGAAGGAGGAGTACGACGAGTCTGGCCCGGCAATTGTTCAC
genomic: GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAGgtatgtattt ... gatttaccagATGTGGATATCGAAGGAGGAGTACGACGAGTCTGGCCCGGCAATTGTTCAC
EST: gi|60351548|gb|DN218521.1|DN218521
EST:     GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAG                         ATGTGGATATCGAAGGAGGAGTACGACGAGTCTGGCCCGGCAATTGTTCAC
genomic: GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAGgtatgtattt ... gatttaccagATGTGGATATCGAAGGAGGAGTACGACGAGTCTGGCCCGGCAATTGTTCAC
EST: gi|24764594|gb|CA399758.1|CA399758
EST:     GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAG                         ATGTGGATATCGAAGGAGGAGTACGACGAGTCTGGCCCGGCAATTGTTCAC
genomic: GTGTCTGGATAGGAGGGTCGATCCTAGCCTCGCTCAGCACTTTCCAACAGgtatgtattt ... gatttaccagATGTGGATATCGAAGGAGGAGTACGACGAGTCTGGCCCGGCAATTGTTCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgccgaaatgaaatcacttctgaattctgttattatgtgccactgatttaccagATGTGGATATCGAAGGAGGAGTACGACGAGTCTGGCCCGGCAATTGTTCACCGGAAGTGCTTCTAG
                                         cactgat  putative branch site (score: 3)
                       aattctgttattat  TA-rich tract