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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_T05
intron # 2
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|211485157|gb|FL401977.1|FL401977
EST:     GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAG                         TTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
genomic: GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAGgtgcgtctcg ... ccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
EST: gi|211212281|gb|FL401789.1|FL401789
EST:     GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAG                         TTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
genomic: GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAGgtgcgtctcg ... ccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
EST: gi|211506661|gb|FL391682.1|FL391682
EST:     GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAG                         TTGACCCTGAAGATATTCCATTTGGAGAAGGTTCAAGTTAAATCCTCAGGA
genomic: GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAGgtgcgtctcg ... ccttttacagTTGACCCTGAAGATATTCCATT-GGAGAAGGTTCAAGTTAAATCCTCAGGA
EST: gi|211471554|gb|FL402494.1|FL402494
EST:     GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAG                         TTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
genomic: GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAGgtgcgtctcg ... ccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
EST: gi|211441205|gb|FL381373.1|FL381373
EST:     GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAG                         TTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
genomic: GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAGgtgcgtctcg ... ccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
EST: gi|211261095|gb|FL369174.1|FL369174
EST:     GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAG                         TTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTA
genomic: GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAGgtgcgtctcg ... ccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTA
EST: gi|211298858|gb|FL392429.1|FL392429
EST:     GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAG                         TTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
genomic: GCTCTTCCGCGCGAGCCCGCGCTACGGGCGCTTGCAAGCCACGGCGGCAGgtgcgtctcg ... ccttttacagTTGACCCTGAAGATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGAC
EST: gi|211466962|gb|FL423373.1|FL423373
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