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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tattttctctgctcctctcggctttgtttcctatcctttccaatgctacgaaaccttgtctgcgttgataattgactatgtcctttgttttctaatgtagTCTGTAGACTATGACAAGGAGGGATCTGTTTTACGTGTGCGTGGAAAAAATATCACTGAGAATGACCATGTGAAG

Basic information

species Zea mays
transcript GRMZM2G044011_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G044011_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os04g56480.1 (Oryza sativa), 3'ss of exon 3
tattttctctgctcctctcggctttgtttcctatcctttccaatgct--acgaaaccttgtctgcgttgataattgactatgtcctttgttttctaatgtagTCTGTAGACTATGACAAGGAGGGATCTGTTTTACGTGTGCGTGGAAAAAATATCACTGAGAATGACCATGTGAAG-------------------------
         ||||| | |  | |||||| | |||  |||||||  |   ||  | |  | |    | |||||| ||||    |||||||||||  |   ||||||||||| ||||| |||||||||||||| || ||||| |||||||||||||| |||||||| || |||||||||                         
-gccagtgatgctcttattagttttgttccttattgtttccaaatcaaaacttacctattttcttgatgataactgacatgctcctttgttttgca-catagTCTGTAGATTATGATAAGGAGGGATCTGTCTTGCGTGTACGTGGAAAAAATATAACTGAGAACGATCATGTGAAGATTGGACAGTTTCATACTGTGGAGC
















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|19351008|gb|BM895540.1|BM895540
EST:     GAGGACGTGATGCCGAGCGTGTGAAGCTTAAGTTAGAAATTGTAGTCGAG                         TCTGTAGACTATGACAAGGAGGGATCTGTTTTACGTGTGCGTGGAAAAAAT
genomic: GAGGACGTGATGCCGAGCGTGTGAAGCTTAAGTTAGAAATTGTAGTCGAGgtgacgcatc ... tctaatgtagTCTGTAGACTATGACAAGGAGGGATCTGTTTTACGTGTGCGTGGAAAAAAT
EST: gi|19272449|gb|BM888705.1|BM888705
EST:     GAGGACGTGATGCCGAGCGTGTGAAGCTTAAGTTAGAAATTGTAGTCGAG                         TCTGTAGACTATGACAAGGAGGGATCTGTTTTACGTGTGCGTGGAAAAAAT
genomic: GAGGACGTGATGCCGAGCGTGTGAAGCTTAAGTTAGAAATTGTAGTCGAGgtgacgcatc ... tctaatgtagTCTGTAGACTATGACAAGGAGGGATCTGTTTTACGTGTGCGTGGAAAAAAT
EST: gi|19351610|gb|BM896142.1|BM896142
EST:     GAGGACGTGATGCCGAGCGTGTGAAGCTTAAGTTAGAAATTGTAGTCGAG                         TCTGTAGACTATGACAAGGAGGGATCTGTTTTACGTGTGCGTGGAAAAAAT
genomic: GAGGACGTGATGCCGAGCGTGTGAAGCTTAAGTTAGAAATTGTAGTCGAGgtgacgcatc ... tctaatgtagTCTGTAGACTATGACAAGGAGGGATCTGTTTTACGTGTGCGTGGAAAAAAT
EST: gi|19351009|gb|BM895541.1|BM895541
EST:     GAGGACGTGATGCCGAGCGTGTGAAGCTTAAGTTAGAAATTGTAGTCGAG                         TCTGTAGACTATGACAAGGAGGGATCTGTTTTACGTGTGCGTGGAAAAAAT
genomic: GAGGACGTGATGCCGAGCGTGTGAAGCTTAAGTTAGAAATTGTAGTCGAGgtgacgcatc ... tctaatgtagTCTGTAGACTATGACAAGGAGGGATCTGTTTTACGTGTGCGTGGAAAAAAT
EST: gi|89251335|gb|DY623121.1|DY623121
EST:     GAGGACGTGATGCCGAGCGTGTGAAGCTTAAGTTAGAAATTGTAGTCGAG                         TCTGTAGACTATGACAAGGAGGGATCTGTTTTACGTGTGCGTGGAAAAAAT
genomic: GAGGACGTGATGCCGAGCGTGTGAAGCTTAAGTTAGAAATTGTAGTCGAGgtgacgcatc ... tctaatgtagTCTGTAGACTATGACAAGGAGGGATCTGTTTTACGTGTGCGTGGAAAAAAT
EST: gi|22491504|gb|BU051427.1|BU051427
EST:     GAGGACGTGATGCCGAGCGTGTGAAGCTTAAGTTAGAAATTGTAGTCGAG                         TCTGTAGACTATGACAAGGAGGGATCTGTTTTACGTGTGCGTGGAAAAAAT
genomic: GAGGACGTGATGCCGAGCGTGTGAAGCTTAAGTTAGAAATTGTAGTCGAGgtgacgcatc ... tctaatgtagTCTGTAGACTATGACAAGGAGGGATCTGTTTTACGTGTGCGTGGAAAAAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctacgaaaccttgtctgcgttgataattgactatgtcctttgttttctaatgtagTCTGTAGACTATGACAAGGAGGGATCTGTTTTACGTGTGCGTGGAAAAAATATCACTGAGAATGACCATGTGAAG
                                            ttctaat  putative branch site (score: 2)
                                 tgtcctttgttttct  CT-rich tract
                   ttgataatt  TA-rich tract