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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggtcctaatcccttaaataatcgttccttttatctaatctttcctgtggccatgtacaaattaaggatgcactttcctgatgcttctagttttatttgctgaaaacagGGCAAGAGGTGAGAGACCTGAAGATTGGGTTCCGGCGGAAGATGCTTCAGTTGATTATGATGATAACTATGATGGGATTGGGGATATACTCCCTGGCCAG

Basic information

species Oryza sativa
transcript LOC_Os11g43860.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g43860.2 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G126601_T01 (Zea mays), 3'ss of exon 4
gtatggtcctaatcccttaaataat--cgttccttttatctaatctttcctgtggccatgta--------caaattaaggatgcactttc-----------ctgatgcttctagttttatttgctgaaaacagGGCAAGAGGTGAGAGACCTGAAGATTGGGTTCCGGCGGAAGATGCTTCAGTTGATTATGATGATAACTATGATGGGATTGGGGATATACTCCCTGGCCAG
||| | |||  || ||| ||  |||  | ||   |||  | ||  | ||   ||| |||||         || |  |||| ||    |             || ||| || | |||  || |||||  | ||| || ||||||||||| |||||||||||||||||  | ||||||| ||| | || |||| | |  || | |||||| ||||  || | |||||||      
gtacgatcccgattcctgaatgaatgcctttttcttttgcaaacttatctcatggtcatgtgtgctccaccagaagaaggttgggtgtatgtatgtagtagcttatgtttttggttcaatctgctgcgatcagTGCGAGAGGTGAGAGGCCTGAAGATTGGGTTCCACCAGAAGATGTTTCTGCTGTTTATTACGCCAAATGTGATGGCATTGACGAGACACTCCCTATGGGT
















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|33381322|gb|CF196665.1|CF196665
EST:     CTTCATGCATATGCGCAGGATAAGCGCTGGCCATATGTGTCAATCCCTTT                         GGCAAGAGGTGAGAGACCTGAAGATTGGGTTCCGGCGGAAGATGCTTCAGT
genomic: CTTCATGCATATGCGCAGGATAAGCGCTGGCCATATGTGTCAATCCCTTTgtatggtcct ... ctgaaaacagGGCAAGAGGTGAGAGACCTGAAGATTGGGTTCCGGCGGAAGATGCTTCAGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtacaaattaaggatgcactttcctgatgcttctagttttatttgctgaaaacagGGCAAGAGGTGAGAGACCTGAAGATTGGGTTCCGGCGGAAGATGCTTCAGTTGATTATGATGATAACTATGATGGGATTGGGGATATACTCCCTGGCCAG
                     tcctgat  putative branch site (score: 3)
                              ttctagttttattt  TA-rich tract