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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttggccaaatcctcataggcatatttagtaagtaataaccatttgtcagaacatttctgagtaaactttgttgactactgactgcgatgcttgtttgcagCCTCTTGATGCCAGTGGCTATGCCACAGTGGAGTTTGGTAGCGCAGATCTATTCCTCCGCTACAGAAAAAAGGACATCCATTCTGGTTCCTGTCTTTGGG

Basic information

species Zea mays
transcript GRMZM2G167728_T03
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G167728_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os12g40500.3 (Oryza sativa), 3'ss of exon 3
----ttggccaaatcctcataggcatatttagtaagtaataaccatttgtcagaacatttctgagtaaactttgttgactactgactgcgatgcttgtttgcagCCTCTTGATGCCAGTGGCTATGCCACAGTGGAGTTTGGTAGCGCAGATCTATTCCTCCGCTACAGAAAAAAGGACATCCATTCTGGTTCCTGTCTTTGGG
    || | |  |   |     || | |||||| |   ||  |   ||||||||| ||||||| | ||      | |   ||| |    |||| |  |||| ||||||||||||||||||| ||||| || || |||||||||||| |||||||  | || || |||||||| ||||| |    | |||  |||||    ||| 
caaatttgtctgacaatacgctgcct-tttagttat--atgcctccttgtcagaatatttctgtgaaagacacttagcagact-atgatgatgttattttgtagCCTCTTGATGCCAGTGGTTATGCGACGGTTGAGTTTGGTAGCCCAGATCTGCTTCTACGTTACAGAAAGAAGGATACTGTTCCTGAATCCTGCTCATGGT
















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|76908362|gb|DV162902.1|DV162902
EST:     CAATCAACTGTAACCTTGTAATAGAGATGCCTCTCCATGCTAGATACCCG                         CCTCTTGATGCCAGTGGCTATGCCACAGTGGAGTTTGGTAGCGCAGATCTA
genomic: CAATCAACTGTAACCTTGTAATAGAGATGCCTCTCCATGCTAGATACCCGgtaagtttct ... ttgtttgcagCCTCTTGATGCCAGTGGCTATGCCACAGTGGAGTTTGGTAGCGCAGATCTA
EST: gi|78123012|gb|DV541396.1|DV541396
EST:     CAATCAACTGTAACCTTGTAATAGAGATGCCTCTCCATGCTAGATACCCG                         CCTCTTGATGCCAGTGGCTATGCCACAGTGGAGTTTGGTAGCGCAGATCTA
genomic: CAATCAACTGTAACCTTGTAATAGAGATGCCTCTCCATGCTAGATACCCGgtaagtttct ... ttgtttgcagCCTCTTGATGCCAGTGGCTATGCCACAGTGGAGTTTGGTAGCGCAGATCTA
EST: gi|76293670|gb|DV033238.1|DV033238
EST:     CAATCAACTGTAACCTTGTAATAGAGATGCCTCTCCATGCTAGATACCCG                         CCTCTTGATGCCAGTGGCTATGCCACAGTGGAGTTTGGTAGCGCAGATCTA
genomic: CAATCAACTGTAACCTTGTAATAGAGATGCCTCTCCATGCTAGATACCCGgtaagtttct ... ttgtttgcagCCTCTTGATGCCAGTGGCTATGCCACAGTGGAGTTTGGTAGCGCAGATCTA
EST: gi|76288285|gb|DV027853.1|DV027853
EST:     CAATCAACTGTAACCTTGTAATAGAGATGCCTCTCCATGCTAGATACCCG                         CCTCTTGATGCCAGTGGCTATGCCACAGTGGAGTTTGGTAGCGCAGATCTA
genomic: CAATCAACTGTAACCTTGTAATAGAGATGCCTCTCCATGCTAGATACCCGgtaagtttct ... ttgtttgcagCCTCTTGATGCCAGTGGCTATGCCACAGTGGAGTTTGGTAGCGCAGATCTA
EST: gi|76017739|gb|DT944909.1|DT944909
EST:     CAATCAACTGTAACCTTGTAATAGAGATGCCTCTCCATGCTAGATACCCG                         CCTCTTGATGCCAGTGGCTATGCCACAGTGGAGTTTGGTAGCGCAGATCTA
genomic: CAATCAACTGTAACCTTGTAATAGAGATGCCTCTCCATGCTAGATACCCGgtaagtttct ... ttgtttgcagCCTCTTGATGCCAGTGGCTATGCCACAGTGGAGTTTGGTAGCGCAGATCTA
EST: gi|50332870|gb|CO527996.1|CO527996
EST:     CAATCAACTGTACCCTTGTAATAGAGATGCCTCTCCATGCTAGATACCCC                         CCTCTTGATGCCAGTGG
genomic: CAATCAACTGTAACCTTGTAATAGAGATGCCTCTCCATGCTAGATACCCGgtaagtttct ... ttgtttgcagCCTCTTGATGCCAGTGG
EST: gi|40334613|gb|CK368683.1|CK368683
EST:     CAAACAACTGTAACCTTGTAATAGAGATGCCTCTCCATGCTAGATACCCG                         CCTCTTGATGCCAGTGGCTATGCCACAGTGGAGTTTGGTAGCCCAGATCTA
genomic: CAATCAACTGTAACCTTGTAATAGAGATGCCTCTCCATGCTAGATACCCGgtaagtttct ... ttgtttgcagCCTCTTGATGCCAGTGGCTATGCCACAGTGGAGTTTGGTAGCGCAGATCTA
EST: gi|78081365|gb|DV509777.1|DV509777
EST:     CAATCAACTGTAACCTTGTAATAGAGATGCCTCTCCATGCTAGATACCCG                         CCTCTTGATGCCAGTGGCTATGCCACAGTGGAGTTTGGTAGCGCAGATCTA
genomic: CAATCAACTGTAACCTTGTAATAGAGATGCCTCTCCATGCTAGATACCCGgtaagtttct ... ttgtttgcagCCTCTTGATGCCAGTGGCTATGCCACAGTGGAGTTTGGTAGCGCAGATCTA
EST: gi|16925257|gb|BM078325.1|BM078325
EST:     CAATCAACTGTAACCTTGTAATAGAGATGCCTCTCCATGCTAGATACCCG                         CCTCTTGATGCCAGTGGCTATGCCACAGTGGAGTTTGGTAGCGCAGATCTA
genomic: CAATCAACTGTAACCTTGTAATAGAGATGCCTCTCCATGCTAGATACCCGgtaagtttct ... ttgtttgcagCCTCTTGATGCCAGTGGCTATGCCACAGTGGAGTTTGGTAGCGCAGATCTA
EST: gi|71416955|gb|DR803872.1|DR803872
EST:     CAATCAACTGTAACCTTGTAATAGAGATGCCTCTCCATGCTAGATACCCG                         CCTCTTGATGCCAGTGGCTATGCCACAGTGGAGTTTGGTAGCGCAGATCTA
genomic: CAATCAACTGTAACCTTGTAATAGAGATGCCTCTCCATGCTAGATACCCGgtaagtttct ... ttgtttgcagCCTCTTGATGCCAGTGGCTATGCCACAGTGGAGTTTGGTAGCGCAGATCTA
EST: gi|148944391|gb|EC889498.2|EC889498
EST:     CAATCAACTGTAACCTTGTAATAGAGATGCCTCTCCATGCTAGATACCCG                         CCTCTTGATGCCAGTGGCTATGCCACAGTGGAGTTTGGTAGCGCAGATCTA
genomic: CAATCAACTGTAACCTTGTAATAGAGATGCCTCTCCATGCTAGATACCCGgtaagtttct ... ttgtttgcagCCTCTTGATGCCAGTGGCTATGCCACAGTGGAGTTTGGTAGCGCAGATCTA
EST: gi|71432217|gb|DR813267.1|DR813267
EST:     CAATCAACTGTAACCTTGTAATAGAGATGCCTCTCCATGCTAGATACCCG                         CCTCTTGATGCCAGTGGCTATGCCACAGTGGAGTTTGGTAGCGCAGATCTA
genomic: CAATCAACTGTAACCTTGTAATAGAGATGCCTCTCCATGCTAGATACCCGgtaagtttct ... ttgtttgcagCCTCTTGATGCCAGTGGCTATGCCACAGTGGAGTTTGGTAGCGCAGATCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcagaacatttctgagtaaactttgttgactactgactgcgatgcttgtttgcagCCTCTTGATGCCAGTGGCTATGCCACAGTGGAGTTTGGTAGCGCAGATCTATTCCTCCGCTACAGAAAAAAGGACATCCATTCTGGTTCCTGTCTTTGGG
                              tactgac  putative branch site (score: 1)
                                            cttgttt  putative PPT
                taaacttt  TA-rich tract