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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttaattgggcggatttcatcatatatttattgttgtgatcacgaaatgatatggtcttgatgaaatttgatttgatttttggtggtttgtgttattgcagCTAGATGATTGGGTCCTGTGCCGAATCTACAACAAGAAAGGCGGCGTGGAGAAGCCGAGCGGCGGCGGCGGCGGCGAACGTTCGAATATGATGAGCCACG

Basic information

species Oryza sativa
transcript LOC_Os05g34830.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g34830.3 (Oryza sativa), 3'ss of exon 1
lower sequence: GLYMA06G16440.1 (Glycine max), 3'ss of exon 2
--ttaattgggcggatttcatcatatatttattgttgtgatcacgaaatgatatggtcttgatgaaatttgatttgatttttggtggtttgtgttattgcagCTAGATGATTGGGTCCTGTGCCGAATCTACAACAAGAAAGGCGGCGTGGAGAAGCCGAGC--GGCGGCGGCGGCGGCGAACGTTCGAAT-ATGATGAGCCACG
  || ||| |       | |  ||    | | | |||   |  |    |  | |  | || || ||| | ||| ||||||| | ||  || || |    ||||| |||||||||||  |||| ||||||||||||||||||||     | |||||    | |  | | ||  ||  |  |||  ||  ||| ||    ||     
ttttgattagaaaaggattagaattgcataagttttgatctttcagtttttttttatttttataaaaatggatctgatttt-gttgtgttatggtgc-acagCTTGATGATTGGGTGTTGTGTCGAATCTACAACAAGAAAGGGAAGATTGAGAAATACAACACGACCGCACCGAAGATGAATCTTGAAATGATTCATAGTT---

upper sequence: LOC_Os05g34830.3 (Oryza sativa), 3'ss of exon 1
lower sequence: GLYMA02G26480.1 (Glycine max), 3'ss of exon 2
-ttaattgggcggatttcatcatatat-ttattgttgtgatcacgaaatgatatggtcttgatgaaatttgatttgatttttggtggtttgtgttattgcagCTAGATGATTGGGTCCTGTGCCGAATCTACAACAAGAAAGGCGGCGTGGAGAAGC--CGAGCGGCGGCGGCGGCGGCGAACGTT--CGAATATGATGAGCCACG
   ||||   ||   ||  | || | | ||   |||  |   | || |  ||      || |  |||| |      ||  ||| || ||| || |  ||||||| ||||| ||||| ||||| ||||| |||||||||||||| |   | |||||||  | | | ||  || |  |  |||  | |  | |  |   |||      
ggaaattattcgttctttcttatctctattgaagttagggatatgaga-aattgaaaattaaaaaaatgtttgcacatgattgttg-tttctgattatgcagCTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAGAAGCAGCAACCAGCACCGCCACCACCGAGTGGTGTCCACAAAATTGAAT----

upper sequence: LOC_Os05g34830.3 (Oryza sativa), 3'ss of exon 1
lower sequence: GLYMA05G32850.1 (Glycine max), 3'ss of exon 2
--ttaattgggcggatttcatcatatatttattgttg-tgatcacgaaatgatatggtcttgatgaaatttgatttgatttttggtggtttgtgttattgcagCTAGATGATTGGGTCCTGTGCCGAATCTACAACAAGAAAGGCGGCGTGGAGAAGCCGAGCGGCGGCGGCGGCGGCGAACGTTCGAATATGAT-GAGCCACG--
  ||||      |||||  || || | |  |   ||| | |    ||||| |||||   ||     |||||  ||| |  | | ||| ||  ||  || |||||| |||||||||||  |||||||||| ||||||||||||||     | ||||||   |  || |   |||| || | |  |  |||  ||    ||  |    
gattaagaacagggatta-ataatgtttcaaagtttggttaggtagaaataatatgtgatttggacaattt--ttttaactgttgtgcttattggaatggcagCTTGATGATTGGGTTTTGTGCCGAATTTACAACAAGAAAGGGAAGATTGAGAAGTACAATGGTG-TTGCGGTGGTGGA--TCAGAAAGTGGCCAAGTTATCAG

upper sequence: LOC_Os05g34830.3 (Oryza sativa), 3'ss of exon 1
lower sequence: GLYMA14G24220.1 (Glycine max), 3'ss of exon 2
------ttaattgggcggatttcatcatatatttattgttgtgatcacgaaatgatatggtcttgatgaaatttgatttgatttttggtggtttgtg-ttattgcagCTAGATGATTGGGTCCTGTGCCGAATCTACAACAAGAAAGGCGGCGTGGAGAAGC--CGAGCGGCGGCGGCGGCGGCGAACGTTCGAATATGATGAGCCACG
       | ||     |||| ||   |  ||   ||||    ||| |  | ||| | ||  | ||||      ||| || ||||| | || ||| || || |||||||| ||||| ||||| ||||||||||| |||||||||||||| |   | || ||||  | |    |  |  ||   | |  |     |||   |||  ||   
ttcgttcttatcttagggatatcggaaattaaaaattg--aagattaaaatatg-tgtgcacatgattg---ctgacttaatttt-gatgatttctgatttttgcagCTGGATGACTGGGTGCTGTGCCGAATTTACAACAAGAAAGGTGCAATTGAAAAGCAACAACTACCACCACCGAGTGGGGTCCGCAAAATTGAATGTTCCG--

upper sequence: LOC_Os05g34830.3 (Oryza sativa), 3'ss of exon 1
lower sequence: GLYMA04G38560.1 (Glycine max), 3'ss of exon 2
-ttaattgggcggatttcatcat-atatttattgttgtgatcacgaaatgatatggtcttgatgaaatttgatttgatttttggtggtttgtgttattgcagCTAGATGATTGGGTCCTGTGCCGAATCTACAACAAGAAAGGCGGCGTGGAGAAGCCGAGCGGCGGCG--GCGGCGGCGAACGTTCGAATATGATGAGCCACG
   ||||       ||||   || | | |||   |||           |  |||  | || || ||    ||| ||||||| | ||  || || |    ||||| |||||||||||  |||| ||||||||||||||||||||     | |||||    | |   ||||  |||  |  ||| |||   | ||| |        
tgcaattttaattgtttcccaatcaaaattagaattgcataagtcttgttctataatttttataaagaaggatctgatttt-gttgtgttatggtgc-acagCTTGATGATTGGGTGTTGTGTCGAATCTACAACAAGAAAGGGAAGATTGAGAAATACAACACAGGCGCAGCGAAGATGAATGTT--GAGATGGTTCATAGTT

upper sequence: LOC_Os05g34830.3 (Oryza sativa), 3'ss of exon 1
lower sequence: PP1S15_200V6.1 (Physcomitrella patens), 3'ss of exon 2
--------------------------------------------------------------------------ttaattgggcggatttcatcatatatttattgttgtgat-cacgaaatgat-atggtcttgatgaaa---tttgatttgatttttggtggtttgtgttattgcagCTAGATGATTGGGTCCTGTGCCGAATCTACAACAAGAAAGGCGGCGTGGAGAAGCCGAGCGGCGGCGGCGGCGGCGAACGTTCGAATATGATGAGCCACG-----
                                                                          |  |||   |  | | |   |  |     || |  || | |  | ||     |      || |   |   |  ||| |||   |        | || |  ||||||||||||||||||||||||||||||| ||  | || |    |   |   ||    ||||| |    ||    ||  ||     |  |  || |||          
gtatgtcctgcattctcctacctcacaaacattcatgtccgctattacgtattttggtgttttctgaaggactttcgattaacccaactcccctacgttcgatttctcttgtttcgtggaacatccacaactatgttaggacgctccgatctgaacgtaacctacatttggtgatgcagCTAGATGATTGGGTCCTGTGCCGAATTTATGAAAAAACCACCCATGCCCAG----CGAGCTGGAAAGGAACAGGAAAATTCCTGCGT-CGAGGAGGTGTTAGCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgatatggtcttgatgaaatttgatttgatttttggtggtttgtgttattgcagCTAGATGATTGGGTCCTGTGCCGAATCTACAACAAGAAAGGCGGCGTGGAGAAGCCGAGCGGCGGCGGCGGCGGCGAACGTTCGAATATGATGAGCCACG
              atgaaatttgatttga  TA-rich tract