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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcagatgtttttcatctgcacacttttctactgcaagtttaaatgacagatgatgttcagtctctgcattctctcaactcatttgactatccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGACATGTTCTGCCATATGTTGGCGTTGCTTGTTTGGGGGCTATTCTGTTTGG

Basic information

species Zea mays
transcript GRMZM2G153704_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G153704_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g04190.2 (Oryza sativa), 3'ss of exon 2
gcagatgtttttcatctgcacacttttc-tactgcaagtttaaa-tgacagatgatgtt-cagtctctgcattctctcaactcatttgactatccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGACATGTTCTGCCATATGTTGGCGTTGCTTGTTTGGGGGCTATTCTGTTTGG
    ||  |  ||||  || ||   ||  |  ||||||   ||| ||  |  |  | |  |  | ||||| |  |||  | |  |   |||||   ||| ||||||| ||||| ||||||||||||||||||||||||| |||||| || |||  ||||||||||||||| |||||||||||||||||||||||| | |||||
--ttatagtgctcatgcgctcatgcttagttttgcaagccaaaactggaatgtagtttaactatatctgc-tgatcttgatttctaatactatttatttccagTTGATCCTGAGGATATTCCATTGGAGAAGGTTCAAGCTAAATCTTCTGGAAGTGTTCTGCCATATGTGGGCGTTGCTTGTTTGGGGGCTATTTTATTTGG
















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|148971787|gb|EE022525.2|EE022525
EST:     GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAG                         TTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
genomic: GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAGgtgcgtctcg ... ccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
EST: gi|211212281|gb|FL401789.1|FL401789
EST:     GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAG                         TTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
genomic: GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAGgtgcgtctcg ... ccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
EST: gi|148977355|gb|EE026050.2|EE026050
EST:     GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAG                         TTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
genomic: GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAGgtgcgtctcg ... ccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
EST: gi|211244572|gb|FL131421.1|FL131421
EST:     GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAG                         TTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
genomic: GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAGgtgcgtctcg ... ccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
EST: gi|148996907|gb|EE035711.2|EE035711
EST:     GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAG                         TTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
genomic: GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAGgtgcgtctcg ... ccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
EST: gi|211153701|gb|FL418638.1|FL418638
EST:     GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAG                         TTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
genomic: GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAGgtgcgtctcg ... ccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
EST: gi|78075828|gb|DV504262.1|DV504262
EST:     GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAG                         TTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
genomic: GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAGgtgcgtctcg ... ccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
EST: gi|78078828|gb|DV507240.1|DV507240
EST:     GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAG                         TTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
genomic: GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAGgtgcgtctcg ... ccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
EST: gi|211441205|gb|FL381373.1|FL381373
EST:     GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAG                         TTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
genomic: GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAGgtgcgtctcg ... ccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
EST: gi|211416246|gb|FL417246.1|FL417246
EST:     GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAG                         TTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
genomic: GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAGgtgcgtctcg ... ccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
EST: gi|211465272|gb|FL339432.1|FL339432
EST:     GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAG                         TTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
genomic: GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAGgtgcgtctcg ... ccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
EST: gi|211210064|gb|FL412311.1|FL412311
EST:     GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAG                         TTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
genomic: GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAGgtgcgtctcg ... ccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
EST: gi|149083192|gb|EE172463.2|EE172463
EST:     GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAG                         TTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
genomic: GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAGgtgcgtctcg ... ccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
EST: gi|148981335|gb|EE027589.2|EE027589
EST:     GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAG                         TTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
genomic: GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAGgtgcgtctcg ... ccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
EST: gi|211349168|gb|FL426325.1|FL426325
EST:     GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAG                         TTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
genomic: GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAGgtgcgtctcg ... ccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
EST: gi|211327531|gb|FL370114.1|FL370114
EST:     G-TCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAG                         TTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
genomic: GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAGgtgcgtctcg ... ccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
EST: gi|149082633|gb|EE171834.2|EE171834
EST:     GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAG                         TTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
genomic: GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAGgtgcgtctcg ... ccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
EST: gi|148953947|gb|EC899333.2|EC899333
EST:     GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAG                         TTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
genomic: GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAGgtgcgtctcg ... ccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acagatgatgttcagtctctgcattctctcaactcatttgactatccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGACATGTTCTGCCATATGTTGGCGTTGCTTGTTTGGGGGCTATTCTGTTTGG
                                   atttgac  putative branch site (score: 4)
                                         ctatcctttt  CT-rich tract
                                               ttttaca  TA-rich tract