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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttctgatttatattatctagagaagttatgtttatgtggatcctgtcacctccattctgtaaatctactggttagagatgctgtaatgttttgtaggcctcactgtttgtcatttgttggtcttgcttctctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCCTCTTGATGTGCCAGAATACATCTTCTGATGATCACAGCAGAAATAAATG

Basic information

species Zea mays
transcript GRMZM2G173354_T03
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G173354_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os11g16390.1 (Oryza sativa), 3'ss of exon 4
gtatgttctgatttatattatctagagaagttatgtttatgtggatcctgtcacctccattctgtaaatctactggttagagatgctgtaatgttttgtaggcctcactgtttgtcatttgttggtcttgcttctctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCCTCTTGATGTGCCAGAATACATCTTCTGATGATCACAGCAGAAATAAATG
|||||||   | |||  ||    | |  | ||  ||||   | |||      ||||   ||    |||| ||  |||   | ||  | ||   ||||| |       ||||| |  || | |   |  |  || |   |  | |||||||||| |||||||| ||||| || || |||| ||||||  | |||||||| ||  | ||||| |||||||||||||       |     | | |  
gtatgtttcaacttagcttg---ataatatttcagtttcacttgatgaatgaacct---tttcagaaatgtaggggtggcaaata-tatatatttttgaa-------ctgttggagatatttatattgtatttgttcattta-gGTTGAGCCGGCCTGAAGGAAAGCCATTTGAGGTCACGGTGGCTGCGTTCCCTCTGGAAATACCAGAGTACATCTTCTGATTTCTGAGGATTGTACATAGT
















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|166659003|gb|EG171721.1|EG171721
EST:     CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAA                         GTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC
genomic: CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAAgtatgttctg ... tctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgttttgtaggcctcactgtttgtcatttgttggtcttgcttctctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCCTCTTGATGTGCCAGAATACATCTTCTGATGATCACAGCAGAAATAAATG
            gcctcac  putative branch site (score: 3)
                                    tcttgcttctctttgc  putative PPT
                           atttgtt  TA-rich tract