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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgaattttgctacaaatgtcatatcttaagtctgttgtgctaacatatgtgaatgctaatagtatacccttctctagtgttgctcttactgctttgattctttctttttggggggaaactataaagcgatttgatgtaagcccagtttattggccatcttttagGTAGTGGAAGCACATCTTTCTGGGGATCAATATCAATATTTTCTTCTACTAGTGATGATCGTACACATTCTTCTGCAAAAGACAACTCATCGAACAAATC

Basic information

species Oryza sativa
transcript LOC_Os01g69130.1
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g69130.1 (Oryza sativa), 3'ss of exon 15
lower sequence: GRMZM2G180335_T03 (Zea mays), 3'ss of exon 7
gtttgaattttgctacaaatgtcatatcttaagtctgttgtgctaacatatgtgaatgctaatagtatacccttctctagtgttgc-tcttactgctttgattctttctttttgggg-ggaaactataaagcgatttgatgtaagcccagtttattggccatcttttagGTAGTGGAAGCACATCTTTCTGGGGATCAATATCAATATTTTCTTCTACTAGTGATGATCGTACACATTCTTCTGCAAAAGACAACTCATCGAACAAATC---------
                                                                 |||    || ||      ||  ||| | | |  |     | |||||||||    |    | | || | ||   || | || ||| |  | |    || |||||||||||||||||||||||||||||  |||||     |||||| ||||    | ||| ||||| |||||| || |||||| ||| ||| || | ||||||||         
-----------------------------------------------------------------tat-tgtttatcagacaatgtatctcagtccaattgccttgtctttttggcctagtgtttctgaaaccatgc-atctcagtccaataaacta-ttat-ttttagGTAGTGGAAGCACATCTTTCTGGA-ATCAA-----ATATTTACTTCC---AATGAGGATCGAACACATGCTCCTGCAAGAGATAACACAGCAAACAAATCTTATGCTAT

upper sequence: LOC_Os01g69130.1 (Oryza sativa), 3'ss of exon 15
lower sequence: GRMZM2G129155_T01 (Zea mays), 3'ss of exon 15
gtttgaattttgctacaaatgtcatatcttaagtctgttgtgctaacatatgtgaatgctaatagtatacccttctctagtgttgctcttactgctttgattctttctttttggggggaaactataaagcgatttgatgtaagcccagtttattggccatcttttagGTAGTGGAAGCACATCTTTCTGGGGATCAATATCAATATTTTCTTCTACTAGTGATGATCGTACACATTCTTCTGCAAAAGACAACTCATCGAACAAATC---------
                                                        || | ||   | |   |     |||      |  | ||| |||  | | | |||| |    |    | | || | ||   || | || ||| |  | ||      |||||||||||||||||||||||||||||  |||||     |||||| ||||    | ||| || || |||||| || |||||| ||| ||| || | ||||||||         
--------------------------------------------------------tgtttatcaaacaatgtatctcagt------ccaattgccttg--tgtcttttttggcctagtgtttctgaaaccatgc-atctcagtccaataaactgat--atttttagGTAGTGGAAGCACATCTTTCTGGA-ATCAA-----ATATTTACTTCC---AATGAGGACCGAACACATCCTCCTGCAAGAGATAACACAACAAACAAATCTTATGCTGT
















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|87005415|gb|CI285637.1|CI285637
EST:     GNTTTACGGCCTGCTGCTGAGGCTGAGAGGCCAGGATCTTCAG                         GTAGTGGAAGCACATCTTTCTGGGGATCAATATCAATATTTTCTTCTACTA
genomic: GGTTTACGGCCTGCTGCTGAGGCTGAGAGGCCAGGATCTTCAGgtttgaattt ... catcttttagGTAGTGGAAGCACATCTTTCTGGGGATCAATATCAATATTTTCTTCTACTA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggggggaaactataaagcgatttgatgtaagcccagtttattggccatcttttagGTAGTGGAAGCACATCTTTCTGGGGATCAATATCAATATTTTCTTCTACTAGTGATGATCGTACACATTCTTCTGCAAAAGACAACTCATCGAACAAATC
                   atttgat  putative branch site (score: 5)
                                            ccatctttt  putative PPT
      aaactataaa  TA-rich tract