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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tattgttctgttttggatggtttaggacatggcattgaatccttaatcatacagtttgtggtgtataatgctcacggttttgtttctggtttatgttaagGTGGAGCTCCATCAGCAAGCACAGATATTCTGATGGATCTTCTATCAATTGGTTCTTCTCCAGTACAAAATGGCCCACCAACAGTATCAAACTTTAGCCT

Basic information

species Oryza sativa
transcript LOC_Os06g07090.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g07090.1 (Oryza sativa), 3'ss of exon 14
lower sequence: GRMZM2G017421_T02 (Zea mays), 3'ss of exon 14
tattgttctgttttggatggtttaggacatggcattgaatccttaatcatacagt-ttgtggtgtataatgctc--acggttttgtttctggtttatgttaagGTGGAGCTCCATCAGCAAGCACAGATATTCTGATGGATCTTCTATCAATTGGTTCTTCTCCAGTACAAAATGGCCCACCAACAGTATCAAACTTTAGCCT---
| ||         |       || ||   |  | |       |    ||| |  |  |||  | || || | |   | |  ||||||| |||| |||||| |||||||||||| ||  ||||||| || |||||||||||||||||||| |||||||| ||||| ||||||||||||||||||||    ||||||||||||||   
tcttaacacacactc--caaatttggttttaacttctgccagtagtgcatgccttactgttctataaaaggattgaatgagtttgttt-tggtctatgtttagGTGGAGCTCCGTCTACAAGCACTGACATTCTGATGGATCTTCTATCTATTGGTTCATCTCCTGTACAAAATGGCCCACCAACG---TCAAACTTTAGCCTTCC

upper sequence: LOC_Os06g07090.1 (Oryza sativa), 3'ss of exon 14
lower sequence: GRMZM2G030144_T03 (Zea mays), 3'ss of exon 13
--tattgttctgttttggatggtttaggacatggcattgaatccttaatcatacagtttgtggtgtataatgctcacggttttgtttctggtttatgttaagGTGGAGCTCCATCAGCAAGCACAGATATTCTGATGGATCTTCTATCAATTGGTTCTTCTCCAGTACAAAATGGCCCACCAACAGTATCAAACTTTAGCCT---
      | |     |  | || ||    |  |     |       ||   | |  ||| || |   ||  |||| | |  |||| |   |  || |||  ||| |||||||| ||  ||||||| || |||||||||||||||||||| |||||||| ||| | ||||||||||| |||||||| |   |||||||||||||   
tcagacggttaacatctgttgattatacattta-tgctctggttgtagcgacattgttagttg-aaatgttgcttatgagtttggtctggtcttgtgtctagGCGGAGCTCCGTCTACAAGCACTGACATTCTGATGGATCTTCTATCTATTGGTTCATCTTCTGTACAAAATGGACCACCAACGG---CAAACTTTAGCCTTCC
















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|58679925|gb|CK068612.1|CK068612
EST:     TTTCCTACAGGATCTTTTGGGCATAGGCTTGACTGATACATCTACAGCAG                         GTGGAGCTCCATCAGCAAGCACAGATATTCTGATGGATCTTCTATCAATTG
genomic: TTTCCTACAGGATCTTTTGGGCATAGGCTTGACTGATACATCTACAGCAGgttttgatct ... ttatgttaagGTGGAGCTCCATCAGCAAGCACAGATATTCTGATGGATCTTCTATCAATTG
EST: gi|27546490|gb|CA764691.2|CA764691
EST:     TTTCCTACAGGATCTTCTGGGCATAGGCTTGACTGATACATCTACAGCAG                         GNGGAGCTCCATCAGCAAGCACAGATATTCTGATGGATCTTCTATCAATTG
genomic: TTTCCTACAGGATCTTTTGGGCATAGGCTTGACTGATACATCTACAGCAGgttttgatct ... ttatgttaagGTGGAGCTCCATCAGCAAGCACAGATATTCTGATGGATCTTCTATCAATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcatacagtttgtggtgtataatgctcacggttttgtttctggtttatgttaagGTGGAGCTCCATCAGCAAGCACAGATATTCTGATGGATCTTCTATCAATTGGTTCTTCTCCAGTACAAAATGGCCCACCAACAGTATCAAACTTTAGCCT
                       tgctcac  putative branch site (score: 2)
                                            tttatgttaa  TA-rich tract