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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcatttgtcaaatagtttttatctatgtattttactattccatatcactgtagtttctttgaaactatttatattttcttagtgctattttcccacttgcctcccccctttgttgttgttgttgttgatatgtggtacccaaattgtacagCATCCAAGTGGAAAGAGAATAATGGTCATCATGTTGATTATGATCAACGGCCTGATATCTTTAG

Basic information

species Zea mays
transcript GRMZM2G164265_T01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G164265_T03 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os07g07560.1 (Oryza sativa), 3'ss of exon 8
gtatgcatttgtcaaatagtttttatctatgtattttactattccatatcactgtagtttctttgaaactatttatattttcttagtgctattttcccacttgcctcccccctttgttgttgttgttgt-tgatatg-tggtacccaaattgtacagCATCCAAGTGGAAAGAGAATAATGGTCATCATGTTGATTATGATCAACGGCCTGATATCTTTAG
||| ||  ||   |  | ||||   |  |   |  ||   ||  |||| ||||     |    |   |   ||||||   |  || | | | ||         |||      |||   ||  || |||| |||||||    |  ||||||||||||||||| || ||||  |||      || || |||||||||||||| ||| ||||||||||||||||
gtaagctattaatagtttgtttcatttcac-cacattttcatggcata-cactaggactaaaatcttatgctttatacacttgtatttccaattgttgttgcccctattagttttcaagtattttttgtatgatatggcattgtccaaattgtacagCATCGAAATGGAGGGAGTCATCAGGGCAACATGTTGATTATGACCAAAGGCCTGATATCTTTAG
















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|67020152|gb|CO448901.1|CO448901
EST:     GCCTGGATCGCCTGACGATAAGAAACTTTATCTTATCGATCTCGGTTTAG                         CATCCAAGTGGAAAGAGAATAATGGTCATCATGTTGATTATGATCAACGGC
genomic: GCCTGGATCGCCTGACGATAAGAAACTTTACCTTATAGATCTCGGTTTAGgtatgcattt ... aattgtacagCATCCAAGTGGAAAGAGAATAATGGTCATCATGTTGATTATGATCAACGGC
EST: gi|9952315|gb|BE638898.1|BE638898
EST:     GCCTGGATCGCCTGACGATAAGAAACTTTATCTTATCGATCTCGGTTTAG                         CATCCAAGTGGAAAGAGAATAATGGTCATCAT
genomic: GCCTGGATCGCCTGACGATAAGAAACTTTACCTTATAGATCTCGGTTTAGgtatgcattt ... aattgtacagCATCCAAGTGGAAAGAGAATAATGGTCATCAT
EST: gi|18654924|gb|BM499729.1|BM499729
EST:     GCCTGGATCGCCTGACGATAAGAAACTTTATCTTATCGATCTCGGTTTAG                         CATCCA-GTGGAAAGAGAATAATGGTCATCAT
genomic: GCCTGGATCGCCTGACGATAAGAAACTTTACCTTATAGATCTCGGTTTAGgtatgcattt ... aattgtacagCATCCAAGTGGAAAGAGAATAATGGTCATCAT
EST: gi|18661950|gb|BM501665.1|BM501665
EST:     GCCTGGATCGCC-GACGATAAGAAACTTTATCTTATCGATCTCGGTTTAG                         CATCCNAGTGGAAAGAGAATAATGGTCATCATGTT
genomic: GCCTGGATCGCCTGACGATAAGAAACTTTACCTTATAGATCTCGGTTTAGgtatgcattt ... aattgtacagCATCCAAGTGGAAAGAGAATAATGGTCATCATGTT
EST: gi|7145135|gb|AW506616.1|AW506616
EST:     GCCTGGATCGCCTGACGATAAGAAACTTTATCTTATCGATCTCGGTTTAG                         CATCCAAGTGGAAAGAGAATAATGGTCATCATGTTGATTATGATCAACGGC
genomic: GCCTGGATCGCCTGACGATAAGAAACTTTACCTTATAGATCTCGGTTTAGgtatgcattt ... aattgtacagCATCCAAGTGGAAAGAGAATAATGGTCATCATGTTGATTATGATCAACGGC
EST: gi|71430775|gb|DR811825.1|DR811825
EST:     GCCTGGATCGCCTGACGATAAGAAACTTTACCTTATAGATCTCGGTTTAG                         CATCCAAGTGGAAAGAGAATAATGGTCATCATGTTGATTATGATCAACGGC
genomic: GCCTGGATCGCCTGACGATAAGAAACTTTACCTTATAGATCTCGGTTTAGgtatgcattt ... aattgtacagCATCCAAGTGGAAAGAGAATAATGGTCATCATGTTGATTATGATCAACGGC
EST: gi|67043197|gb|CO469452.1|CO469452
EST:     GCCTGGATCGCCTGACGATAAGAAACTTTATCTTACCGATCTCGGTTTAG                         CATCCAAGTGGAAAGAGAATAATGGTCATCATGTTGATTATGATCAACGGC
genomic: GCCTGGATCGCCTGACGATAAGAAACTTTACCTTATAGATCTCGGTTTAGgtatgcattt ... aattgtacagCATCCAAGTGGAAAGAGAATAATGGTCATCATGTTGATTATGATCAACGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgcctcccccctttgttgttgttgttgttgatatgtggtacccaaattgtacagCATCCAAGTGGAAAGAGAATAATGGTCATCATGTTGATTATGATCAACGGCCTGATATCTTTAG
                          tgttgat  putative branch site (score: 4)
                                            aaattgta  TA-rich tract