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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTGGACCAAATCAAAGGATCCTTGAGGCGTTGAGCGCCACACAGCCCAGCAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTTgtgagatccttttccctgtcgatttataatgagtcgcaatctttcgcgctaatgcaacttaatctttctaatccaatggacttacaagtcgtgaaaccgtgtggtattttattgatatgctaaaagtgatttgaatggatgaatcgacctcag

Basic information

species Physcomitrella patens
transcript PP1S98_113V6.4
intron # 3
splice site 5'
intron type U2

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|37847051|gb|BJ605059.1|BJ605059
EST:     GAATTCATCCGCTT                         GCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
genomic: GAATTCATCCGCTTgtgagatcct ... tcgacctcagGCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
EST: gi|18369530|gb|BJ201617.1|BJ201617
EST:     CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTT                         GCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
genomic: CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTTgtgagatcct ... tcgacctcagGCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
EST: gi|37847630|gb|BJ605638.1|BJ605638
EST:     TTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTT                         GCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
genomic: TTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTTgtgagatcct ... tcgacctcagGCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
EST: gi|18349339|gb|BJ181388.1|BJ181388
EST:     CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTT                         GCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
genomic: CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTTgtgagatcct ... tcgacctcagGCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
EST: gi|37828279|gb|BJ586291.1|BJ586291
EST:     AAGTATTCCGAGTCCATGTTTGCCAAAACCCANCCGGAATTCATCCGCTT                         GCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
genomic: AAGTATTCCGAGTCCATGTTTGCCAAAACCCAACC-GAATTCATCCGCTTgtgagatcct ... tcgacctcagGCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
EST: gi|18367740|gb|BJ199823.1|BJ199823
EST:     CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTT                         GCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
genomic: CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTTgtgagatcct ... tcgacctcagGCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
EST: gi|18349121|gb|BJ181170.1|BJ181170
EST:     CAAGTATTCCGAGTCCATGTTTGCCAAAAACCAACCGAATTCATCCGCTT                         GCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
genomic: CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTTgtgagatcct ... tcgacctcagGCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
EST: gi|18366901|gb|BJ198981.1|BJ198981
EST:     CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTT                         GCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
genomic: CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTTgtgagatcct ... tcgacctcagGCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
EST: gi|37836088|gb|BJ594096.1|BJ594096
EST:     CCGAGTCCATGTTTGCCAAAAACCAACNGAATTCATCCGCTT                         GCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
genomic: CCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTTgtgagatcct ... tcgacctcagGCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
EST: gi|18360688|gb|BJ192751.1|BJ192751
EST:     CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTT                         GCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
genomic: CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTTgtgagatcct ... tcgacctcagGCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
EST: gi|18375213|gb|BJ206791.1|BJ206791
EST:     CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTT                         GCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
genomic: CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTTgtgagatcct ... tcgacctcagGCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
EST: gi|18362274|gb|BJ194344.1|BJ194344
EST:     CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTT                         GCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
genomic: CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTTgtgagatcct ... tcgacctcagGCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
EST: gi|37839578|gb|BJ597586.1|BJ597586
EST:     CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTT                         GCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
genomic: CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTTgtgagatcct ... tcgacctcagGCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
EST: gi|37834923|gb|BJ592935.1|BJ592935
EST:     AAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGGAATTCATCCGCTT                         GCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
genomic: AAGTATTCCGAGTCCATGTTTGCCAAAACCCAACC-GAATTCATCCGCTTgtgagatcct ... tcgacctcagGCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
EST: gi|18357632|gb|BJ189691.1|BJ189691
EST:     CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTT                         GCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
genomic: CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTTgtgagatcct ... tcgacctcagGCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
EST: gi|18343578|gb|BJ175616.1|BJ175616
EST:     CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTT                         GCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
genomic: CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTTgtgagatcct ... tcgacctcagGCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
EST: gi|18366730|gb|BJ198809.1|BJ198809
EST:     CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTT                         GCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
genomic: CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTTgtgagatcct ... tcgacctcagGCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
EST: gi|18372800|gb|BJ204402.1|BJ204402
EST:     CAAGTATTCCGAGTCCATGCTTGCCAAAACCCAACCGAATTCATCCGCTT                         GCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
genomic: CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTTgtgagatcct ... tcgacctcagGCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
EST: gi|37836995|gb|BJ595003.1|BJ595003
EST:     CAAGTATTCCGAGTCCATGTTTGCCAAAACCCANCNGAATTCATCCGCTT                         GCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
genomic: CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTTgtgagatcct ... tcgacctcagGCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
EST: gi|18366664|gb|BJ198743.1|BJ198743
EST:     CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTT                         GCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
genomic: CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTTgtgagatcct ... tcgacctcagGCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
EST: gi|18351125|gb|BJ183176.1|BJ183176
EST:     CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTT                         GCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
genomic: CAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTTgtgagatcct ... tcgacctcagGCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
EST: gi|37847120|gb|BJ605128.1|BJ605128
EST:     AAGTATTCCGAGTCCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTT                         GCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG
genomic: AAGTATTCCGAGT-CCATGTTTGCCAAAACCCAACCGAATTCATCCGCTTgtgagatcct ... tcgacctcagGCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATG

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 35 (upstream exon), 35 (downstream exon)
Score: 56

CTTGGACCAAATCAAAGGATCCTTGAGGCGTTGAGCGCCACACAGCCCAGCAAGTATTCCGAGTCCATGTTTGCCAAAACCCAACCGAATTCATCCGCTTgtgagatcct ... tcgacctcagGCGTGCCGATGACGATTGCTGTGGCGGAATTCAAGGGTCCAGACGTGCATGGTGTGGTTCGTTTCGCCCAAGAAAACAGCGGGCTGCAAGAATGCAGCAT




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