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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaatttattttctttgctgtgtttatatggttgttcaacaagtttttttgaatcctaagcttgcttacttttgtttacagGGTATAATTTCCGGAATAAATGCAGCTAGGCATTCTGATGGAAAGCCACTTATCATTCTTGAGAGAGAAAGCAGTTATATTGGGACTCTGATTGATGATC

Basic information

species Oryza sativa
transcript LOC_Os01g72980.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g72980.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G481548_T01 (Zea mays), 3'ss of exon 8
----------------gttaatttattttc--tttgctgt-gtttatatggttg-ttcaacaagtttttttgaatcctaagcttgcttacttttgtttacagGGTATAATTTCCGGAATAAATGCAGCTAGGCATTCTGATGGAAAGCCACTTATCATTCTTGAGAGAGAAAGCAGTTATATTGGGACTCTGATTGATGATC
                | |  ||  |  |    |   ||  |||| |||||||| ||  || || |||  || ||| ||| |||||| | |  ||| || ||||||||||||| ||||| ||||||||||||||||||||||| ||  || | || ||||||||||| |||||||||||||| || ||||| ||||||||||
gtttattcattgttctgcttgttcttcattagctaattgcagtttgtatggttggttggactagatttgctggatcttaaacttgctgattgctgtatatagGGTATAATTTCTGGAATCAATGCAGCTAGGCATTCTGATGGGAAATCATTAATTATTCTTGAGAGGGAAAGCAGTTATATAGGAACTCTTATTGATGATC

upper sequence: LOC_Os01g72980.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G440344_T01 (Zea mays), 3'ss of exon 2
--------------------gttaatttattttctttgctgtgtttatatggttg-ttcaacaagtttttttgaatcctaagcttgcttacttttgtttacagGGTATAATTTCCGGAATAAATGCAGCTAGGCATTCTGATGGAAAGCCACTTATCATTCTTGAGAGAGAAAGCAGTTATATTGGGACTCTGATTGATGATC
                    |||  || |||  ||       |||| |||||||| ||  || || |||  || ||| ||| |||||| | |  ||| || ||||||||||||| ||||| ||||||||||||||||| ||||| ||  || | || ||||||||||| |||||||||||||| |  ||||| ||||||||||
gtttattcattgttctgcctgttc-ttcattagctaattgcagtttgtatggttggttggactagatttgctggatcttaaacttgctgattgctgtatatagGGTATAATTTCTGGAATCAATGCAGCTAGGCATTCCGATGGGAAATCATTAATTATTCTTGAGAGGGAAAGCAGTTATATAGAAACTCTTATTGATGATC

upper sequence: LOC_Os01g72980.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G070058_T01 (Zea mays), 3'ss of exon 1
-------------------gttaatttattttc--tttgctgt-gtttatatggttg-ttcaacaagtttttttgaatcctaagcttgcttacttttgtttacagGGTATAATTTCCGGAATAAATGCAGCTAGGCATTCTGATGGAAAGCCACTTATCATTCTTGAGAGAGAAAGCAGTTATATTGGGACTCTGATTGATGATC
                   | |  ||  |  |    |   ||  |||| |||||||| ||  || || |||  || ||| ||| |||||| | |  ||| || ||||||||||||| ||||| ||||||||||||||||||||||| ||  || | || ||||||||||| |||||||||||||| || ||||| ||||||||||
gtttattcattgtcgttctgcttgttcttcattagctaattgcagtttgtatggttggttggactagatttgctggatcttaaacttgctgattgctgtatatagGGTATAATTTCTGGAATCAATGCAGCTAGGCATTCTGATGGGAAATCATTAATTATTCTTGAGAGGGAAAGCAGTTATATAGGAACTCTTATTGATGATC

upper sequence: LOC_Os01g72980.1 (Oryza sativa), 3'ss of exon 8
lower sequence: Vv04s0044g01690.t01 (Vitis vinifera), 3'ss of exon 8
--------------------------------------------------------gttaatttattttctttgctgtgtttata-------tggttgttcaacaagtttttttgaatc-ctaagcttgcttacttttgtttacagGGTATAATTTCCGGAATAAATGCAGCTAGGCATTCTGATGGAAAGCCACTTATCATTCTTGAGAGAGAAAGCAGTTATATTGGGACTCTGATTGATGATC
                                                        |   || |  |  ||||    | ||   |       | || | |     |    | |||| || || |  ||    ||  || | |  ||||| ||||||| ||||| ||||| || ||  |||| ||||| ||  | || ||  |||||||||| ||||||||||| || |||||| |||| |||||||
gtttttatctatttagaatgtcctttattcttttttatttttaacaaataggaaaagagcatgtggtggctttcacatattggaaaaggaagtcgtagcttctggaccactcttgactctctcaatttatccacgcttttctgtagGGTTTAATTTCTGGAATTAATGCTGCCAGATATTCAGATGGTAAATCCCTCATTGTTCTTGAGAGGGAAAGCAGTTACATAGGGACTTTGATAGATGATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatggttgttcaacaagtttttttgaatcctaagcttgcttacttttgtttacagGGTATAATTTCCGGAATAAATGCAGCTAGGCATTCTGATGGAAAGCCACTTATCATTCTTGAGAGAGAAAGCAGTTATATTGGGACTCTGATTGATGATC
                                    tgcttac  putative branch site (score: 2)
                                      cttactttt  CT-rich tract
              aagtttttttgaat  TA-rich tract