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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttctgcatgcttgttttttcaatgtttttttccccctgaatcaaatgaatagttcagttatgcttcacctctttcctgatgttatccttacaatggcagGTTTTTGTGCGAGATTTTTTTCCAAGTGCATTGGCTTTTCTAATGAATAATGAGACTGATATAGTGAAAAACTTCCTCTTGAAAACACTCCACCTGCAAA

Basic information

species Oryza sativa
transcript LOC_Os11g07440.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g07440.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G007277_T01 (Zea mays), 3'ss of exon 2
--cttctgcatgcttg---ttttttcaatgtttttttccccctgaatcaaatgaatagttcagttatgcttcacctctttcctgatgttatccttacaatggcagGTTTTTGTGCGAGATTTTTTTCCAAGTGCATTGGCTTTTCTAATGAATAATGAGACTGATATAGTGAAAAACTTCCTCTTGAAAACACTCCACCTGCAAA
   |  |  ||   ||   |||| |   || ||  ||  || | ||   ||| || ||     | | |    ||   |  |      || |  | |  |||||||||||||||| | |||||| |||| |||||||||||||| |||||||||||||||||||| |||||||| ||||| ||||||||||| || ||||| || |
gtatggtatataactggagttttcttgttgattacttttccttaaa--gaattaa-agcctcatgacgtgctactgttgactgctcattgt--taattatggcagGTTTTTGTGAGGGATTTTGTTCCGAGTGCATTGGCTTTCCTAATGAATAATGAGACTGACATAGTGAAGAACTTTCTCTTGAAAACTCTTCACCTTCAGA

upper sequence: LOC_Os11g07440.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G115451_T02 (Zea mays), 3'ss of exon 2
------cttctgcatgcttgttttttcaatgtttttttccccctgaatcaaatgaatagttcagttatgcttcacctctttcctgatgttatccttacaatggcagGTTTTTGTGCGAGATTTTTTTCCAAGTGCATTGGCTTTTCTAATGAATAATGAGACTGATATAGTGAAAAACTTCCTCTTGAAAACACTCCACCTGCAAA
       || | | || || || | |   || ||  |||     |||| || |     |    | || | || |   ||  | |  | |||     |  ||  |||||||||||| | |||||  |||| || |||||||||||||||||||| ||||||||||| |||||||| || || ||||||||||| || ||||| || |
aactggatttttcctgttt-ttctatttctggttacttcttaaagaattaagtctgatggcgtgctaagattgattgctcccttattatta-----attatttcagGTTTTTGTGAGGGATTTCGTTCCGAGCGCATTGGCTTTTCTAATGAACAATGAGACTGACATAGTGAAGAATTTTCTCTTGAAAACTCTTCACCTTCAGA

upper sequence: LOC_Os11g07440.3 (Oryza sativa), 3'ss of exon 2
lower sequence: AT4G09510.1 (Arabidopsis thaliana), 3'ss of exon 2
cttctgcatgcttgttttttcaatgtttttttccccctgaatcaaatgaatagttcagttatgcttcacctctttcctgatgttatccttacaatggcagGTTTTTGTGCGAGATTTTTTTCCAAGTGCATTGGCTTTTCTAATGAATAATGAGACTGATATAGTGAAAAACTTCCTCTTGAAAACACTCCACCTGCAAA
                |    || | || |   |   |||    |    ||| |  | || ||  |    | | ||   |  |      ||     | |||| ||||| || || ||| | |||||||||||||| ||||| ||||||   ||| | |||||||||||||||||| |  | || ||||| || || ||| 
---------------gtaactaaagattctagacg--tgacctgagc--ataatcgatttttgtgtagaatatctcaaaacttgtcttctatttgagtagGTGTTTGTACGTGACTTTGTACCAAGTGCATTGGCGTTTCTGATGAATGGAGAGCCCGATATAGTGAAAAACTTCTTGCTCAAGACACTTCAGCTTCAAG

upper sequence: LOC_Os11g07440.3 (Oryza sativa), 3'ss of exon 2
lower sequence: Vv18s0072g01040.t01 (Vitis vinifera), 3'ss of exon 2
--cttctgcatgcttgttttttcaatgtttttttccccctgaatcaaatgaatagttcagttatgcttcacctctttcctgatgttatccttacaatggcagGTTTTTGTGCGAGATTTTTTTCCAAGTGCATTGGCTTTTCTAATGAATAATGAGACTGATATAGTGAAAAACTTCCTCTTGAAAACACTCCACCTGCAAA
      |  |   |   |   | ||   | |  ||     ||    |  |      |    ||   ||||  |||||  |   ||| |   |    || ||||||||||| ||||||||| | || |||||  |||||||||||||||||  |||| |||| ||||| ||||| ||||| ||||| || || || || ||| 
gggaagtagaccataactaggtaaaaactataatcagggagatagtagcgtgggaatagaataaatttcaa-tctttgatctggtttttgatttggtg-cagGTTTTTGTACGAGATTTTGTACCTAGTGCTCTGGCTTTTCTAATGAATGGTGAGCCTGAGATAGTTAAAAATTTCCTTTTGAAGACTCTGCATCTTCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgaatagttcagttatgcttcacctctttcctgatgttatccttacaatggcagGTTTTTGTGCGAGATTTTTTTCCAAGTGCATTGGCTTTTCTAATGAATAATGAGACTGATATAGTGAAAAACTTCCTCTTGAAAACACTCCACCTGCAAA
                                        tccttac  putative branch site (score: 2)
                                        tccttac  CT-rich tract
                                  atgttat  TA-rich tract