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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggttatcaccatgttttgtgatgcttttgtgattgcgtacacttgtcttcgctgacttttggctatcaatgctttgtgctgcagTCGTCCGACTTCTCTACATGATCGTGGTAGGGATAGCGATGATGATGACTTCCGAGACAGGGACTATGATGTGGCGGCACTTGCTAATAACCTGAGCCAG

Basic information

species Oryza sativa
transcript LOC_Os05g51490.1
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g51490.1 (Oryza sativa), 3'ss of exon 15
lower sequence: GRMZM5G812498_T01 (Zea mays), 3'ss of exon 5
-----------------------------------gtaggttatcaccatgttttgtgatgcttttgtgattgcgtacacttgtcttcgctgacttttggctatcaatgctttgtgctgcagTCGTCCGACTTCTCTACATGATCGTGGTAGGGATAGCGATGATGATGACTTCCGAGACAGGGACTATGATGTGGCGGCACTTGCTAATAACCTGAGCCAG
                                    ||   |      |   || || ||   | |||| |    |  |  | ||||| |||||| |||||||   ||| ||| |||||||| ||||| || ||||||||||||||||| |||||||||||||| || |||||||||||||| ||||| |||||||| |||||  |||||||  ||||||||
gtatgttcttccattctgggttctctgattattgtctacactgctgaaacactt-gtcatttgtctgtggtaaattttatatttcttc-ctgactgttggcta---atgttttatgctgcagCCGTCCAACATCTCTACATGATCGTGGGAGGGATAGCGATGACGACGACTTCCGAGACAGAGACTACGATGTGGCAGCACTCACTAATAATATGAGCCAG
















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|58612771|gb|CK040483.1|CK040483
EST:     GCCCTGGTCAAACGCAATGAGGTTGAGAACGTTTATCATTGGGCCTGTGG                         TCGTCCGACTTCTCTACATGATCGTGGTAGGGATAGCGATGATGATGACTT
genomic: GCCCTGGTCAAACGCAATGAGGTTGAGAACGTTTATCATTGGGCCTGTGGgtaggttatc ... tgtgctgcagTCGTCCGACTTCTCTACATGATCGTGGTAGGGATAGCGATGATGATGACTT
EST: gi|58608385|gb|CK036418.1|CK036418
EST:     CCCTGGTCAAACGCAATGAGGTTGAGAACGTTTATCATGTGGGCCTGTGG                         TCGTCCGACTTCTCTACATGATCGTGGTAGGGATAGCGATGATGATGACTT
genomic: CCCTGGTCAAACGCAATGAGGTTGAGAACGTTTATCAT-TGGGCCTGTGGgtaggttatc ... tgtgctgcagTCGTCCGACTTCTCTACATGATCGTGGTAGGGATAGCGATGATGATGACTT
EST: gi|58653975|gb|CK042655.1|CK042655
EST:     GCCCTGGTCAAACGCAATGAGGTTGAGAACGTTTATCATTGGGCCTGTGG                         TCGTCCGACTTCTCTACATGATCGTGGTAGGGATAGCGATGATGATGACTT
genomic: GCCCTGGTCAAACGCAATGAGGTTGAGAACGTTTATCATTGGGCCTGTGGgtaggttatc ... tgtgctgcagTCGTCCGACTTCTCTACATGATCGTGGTAGGGATAGCGATGATGATGACTT
EST: gi|58689163|gb|CK077850.1|CK077850
EST:     GCCCTGGTCAAACGCAATGAGGTTGAGAACGTTTATCATTGGGCCTGTGG                         TCGTCCGACTTCTCTACATGATCGTG
genomic: GCCCTGGTCAAACGCAATGAGGTTGAGAACGTTTATCATTGGGCCTGTGGgtaggttatc ... tgtgctgcagTCGTCCGACTTCTCTACATGATCGTG
EST: gi|58660503|gb|CK049183.1|CK049183
EST:     AGAACGTTTATCATTGGGCCTGTGG                         TCGTCCGACTTCTCTACATGATCGTGGTAGGGATAGCGATGATGATGACTT
genomic: AGAACGTTTATCATTGGGCCTGTGGgtaggttatc ... tgtgctgcagTCGTCCGACTTCTCTACATGATCGTGGTAGGGATAGCGATGATGATGACTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgattgcgtacacttgtcttcgctgacttttggctatcaatgctttgtgctgcagTCGTCCGACTTCTCTACATGATCGTGGTAGGGATAGCGATGATGATGACTTCCGAGACAGGGACTATGATGTGGCGGCACTTGCTAATAACCTGAGCCAG
                    cgctgac  putative branch site (score: 3)
                                  tatcaat  TA-rich tract