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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTACACCGTCAGGAGTCGATTGTGAGCTAAATACTTTCGTCATTGCCTTCACTCTCATTCTTGGTGTATCCTTTGCTATCGTTTCCCTGCATCCTCAGgtgcgttgttcgactgttttcacttttttttccgttgatgtttgttcttcccttaattaggcgaggtagatgataattttactgctcatgttcgaccctgacaatcgatgtgaaatttgataacactaattacagaaaatgagaggttttcaaggccacaactataactgttgtaattgtgcaatgtag

Basic information

species Physcomitrella patens
transcript PP1S78_51V6.1
intron # 5
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|162159385|gb|FC335173.1|FC335173
EST:     TCACTCTCATTCTTGGTGTATCCTTTGCTATCGTTTCCCTGCATCCTCAG                         GTGAATGGCAGTCTTTTACCAGCTGGCGTGATAGCAGCTTATTGCACCTAC
genomic: TCACTCTCATTCTTGGTGTATCCTTTGCTATCGTTTCCCTGCATCCTCAGgtgcgttgtt ... tgcaatgtagGTGAATGGCAGTCTTTTACCAGCTGGCGTGATAGCAGCTTATTGCACCTAC
EST: gi|208360854|gb|DC934750.1|DC934750
EST:     TCACTCTCATTCTTGGTGTATCCTTTGCTATCGTTTCCCTGCATCCTCAG                         GTGAATGGCAGTCTTTTACCAGCTGGCGTGATAGCAGCTTATTGCACCTAC
genomic: TCACTCTCATTCTTGGTGTATCCTTTGCTATCGTTTCCCTGCATCCTCAGgtgcgttgtt ... tgcaatgtagGTGAATGGCAGTCTTTTACCAGCTGGCGTGATAGCAGCTTATTGCACCTAC
EST: gi|162226437|gb|FC402417.1|FC402417
EST:     TCACTCTCATTCTTGGTGTATCCTTTGCTATCGTTTCCCTGCATCCTCAG                         GTGAATGGCAGTCTTTTACCAGCTGGCGTGATAGCAGCTTATTGCACCTAC
genomic: TCACTCTCATTCTTGGTGTATCCTTTGCTATCGTTTCCCTGCATCCTCAGgtgcgttgtt ... tgcaatgtagGTGAATGGCAGTCTTTTACCAGCTGGCGTGATAGCAGCTTATTGCACCTAC
EST: gi|162279685|gb|FC455398.1|FC455398
EST:     TCACTCTCATTCTTGGTGTATCCTTTGCTATCGTTTCCCTGCATCCTCAG                         GTGAATGGCAGTCTTTTACCAGCTGGCGTGATAGCAGCTTATTGCACCTAC
genomic: TCACTCTCATTCTTGGTGTATCCTTTGCTATCGTTTCCCTGCATCCTCAGgtgcgttgtt ... tgcaatgtagGTGAATGGCAGTCTTTTACCAGCTGGCGTGATAGCAGCTTATTGCACCTAC
EST: gi|208364858|gb|DC957895.1|DC957895
EST:     TCACTCTCATTCTTGGTGTATCCTTTGCTATCGTTTCCCTGCATCCTCAG                         GTGAATGGCAGTCTTTTACCAGCTGGCGTGATAGCAGCTTATTGCACCTAC
genomic: TCACTCTCATTCTTGGTGTATCCTTTGCTATCGTTTCCCTGCATCCTCAGgtgcgttgtt ... tgcaatgtagGTGAATGGCAGTCTTTTACCAGCTGGCGTGATAGCAGCTTATTGCACCTAC
EST: gi|162190510|gb|FC365732.1|FC365732
EST:     TCACTCTCATTCTTGGTGTATCCTTTGCTATCGTTTCCCTGCATCCTCAG                         GTGAATGGCAGTCTTTTACCAGCTGGCGTGATAGCAGCTTATTGCACCTAC
genomic: TCACTCTCATTCTTGGTGTATCCTTTGCTATCGTTTCCCTGCATCCTCAGgtgcgttgtt ... tgcaatgtagGTGAATGGCAGTCTTTTACCAGCTGGCGTGATAGCAGCTTATTGCACCTAC
EST: gi|208345443|gb|DC917340.1|DC917340
EST:     TCACTNTCATTCTTGGTGTATCCTTTGCTATCGTTTCCCTGCATCCTCAG                         GTGAATGGCAGTCTTTTACCAGCTGGCGTGATAGCAGCTTATTGCACCTAC
genomic: TCACTCTCATTCTTGGTGTATCCTTTGCTATCGTTTCCCTGCATCCTCAGgtgcgttgtt ... tgcaatgtagGTGAATGGCAGTCTTTTACCAGCTGGCGTGATAGCAGCTTATTGCACCTAC
EST: gi|162255916|gb|FC431992.1|FC431992
EST:     TCACTCTCATTCTTGGTGTATCCTTTGCTATCGTTTCCCTGCATCCTCAG                         GTGAATGGCAGTCTTTTACCAGCTGGCGTGATAGCAGCTTATTGCACCTAC
genomic: TCACTCTCATTCTTGGTGTATCCTTTGCTATCGTTTCCCTGCATCCTCAGgtgcgttgtt ... tgcaatgtagGTGAATGGCAGTCTTTTACCAGCTGGCGTGATAGCAGCTTATTGCACCTAC
EST: gi|162276898|gb|FC452580.1|FC452580
EST:     TCACTCTCATTCTTGGTGTATCCTTTGCTATCGTTTCCCTGCATCCTCAG                         GTGAATGGCAGTCTTTTACCAGCTGGCGTGATAGCAGCTTATTGCACCTAC
genomic: TCACTCTCATTCTTGGTGTATCCTTTGCTATCGTTTCCCTGCATCCTCAGgtgcgttgtt ... tgcaatgtagGTGAATGGCAGTCTTTTACCAGCTGGCGTGATAGCAGCTTATTGCACCTAC

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: 28 (upstream exon), 25 (downstream exon)
Score: 4

GTTTACACCGTCAGGAGTCGATTGTGAGCTAAATACTTTCGTCATTGCCTTCACTCTCATTCTTGGTGTATCCTTTGCTATCGTTTCCCTGCATCCTCAGgtgcgttgtt ... tgcaatgtagGTGAATGGCAGTCTTTTACCAGCTGGCGTGATAGCAGCTTATTGCACCTACCTTTGCTACAGTGCGTTGTCAAGTGAGCCTCGGAATTATGAGTGCAATG




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