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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTGTTTCAGTTCCAGGAGGTATGGGAGGTTTCAATTGTGGCACATTTGTAGCGGGTATTGTGAAGgtgattgtctctctaatttgttcctttccacttttggagcttcatcgctgtcaacaagcctgtatatgatttacctgatgccatatattttagtcctatttatttaccttaacttttacacaatgtgcctgccag

Basic information

species Physcomitrella patens
transcript PP1S303_47V6.1
intron # 6
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|7648150|gb|AW739133.1|AW739133
EST:     GAGGTATGGGAGGTTTCAATTGTGGCACATTTGTAGCGGGTATTGTGAAG                         GGAGTGTTGGATGGAGCTGGCTTTCCTGCAAGAGTAACAGCTCATTTTGTT
genomic: GAGGTATGGGAGGTTTCAATTGTGGCACATTTGTAGCGGGTATTGTGAAGgtgattgtct ... tgcctgccagGGAGTGTTGGATGGAGCTGGCTTTCCTGCAAGAGTAACAGCTCATTTTGTT
EST: gi|67508488|gb|BJ941353.1|BJ941353
EST:     GAGGTATGGGAGGTTTCAATTGTGGCACATTTGTAGCGGGTATTGTGAAG                         GGAGTGTTGGATGGAGCTGGCTTTCCTGCAAGAGTAACAGCTCATTTTGTT
genomic: GAGGTATGGGAGGTTTCAATTGTGGCACATTTGTAGCGGGTATTGTGAAGgtgattgtct ... tgcctgccagGGAGTGTTGGATGGAGCTGGCTTTCCTGCAAGAGTAACAGCTCATTTTGTT
EST: gi|7067053|gb|AW496908.1|AW496908
EST:     GAGGTATGGGAGGTTTCAATTGTGGCACATNTGTAGCGGGTATTGTGAAG                         GGAGTGTTGGATGGAGCTGGCT
genomic: GAGGTATGGGAGGTTTCAATTGTGGCACATTTGTAGCGGGTATTGTGAAGgtgattgtct ... tgcctgccagGGAGTGTTGGATGGAGCTGGCT
EST: gi|162226760|gb|FC403806.1|FC403806
EST:     GAGGTATGGGAGGTTTCAATTGTGGCACATTTGTAGCGGGTATTGTGAAG                         GGAGTGTTGGATGGAGCTGGCTTTCCTGCAAGAGTAACAGCTCATTTTGTT
genomic: GAGGTATGGGAGGTTTCAATTGTGGCACATTTGTAGCGGGTATTGTGAAGgtgattgtct ... tgcctgccagGGAGTGTTGGATGGAGCTGGCTTTCCTGCAAGAGTAACAGCTCATTTTGTT
EST: gi|162226761|gb|FC403807.1|FC403807
EST:     GAGGTATGGGAGGTTTCAATTGTGGCACATTTGTAGCGGGTATTGTGAAG                         GGAGTGTTGGATGGAGCTGGCTTTCCTGCAAGAGTAACAGCTCATTTTGTT
genomic: GAGGTATGGGAGGTTTCAATTGTGGCACATTTGTAGCGGGTATTGTGAAGgtgattgtct ... tgcctgccagGGAGTGTTGGATGGAGCTGGCTTTCCTGCAAGAGTAACAGCTCATTTTGTT
EST: gi|7286870|gb|AW599357.1|AW599357
EST:     GAGGTATGGGAGGTTTCAATTGTGGCACATTTGTAGCGGGTATTGTGAAG                         GGAGTGTTGGATGGAGCTGGCTTTCCTGCAAGAGTAACAGCTCATTTTGTT
genomic: GAGGTATGGGAGGTTTCAATTGTGGCACATTTGTAGCGGGTATTGTGAAGgtgattgtct ... tgcctgccagGGAGTGTTGGATGGAGCTGGCTTTCCTGCAAGAGTAACAGCTCATTTTGTT

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: 33 (upstream exon), 33 (downstream exon)
Score: 5

GTTTGTTTCAGTTCCAGGAGGTATGGGAGGTTTCAATTGTGGCACATTTGTAGCGGGTATTGTGAAGgtgattgtct ... tgcctgccagGGAGTGTTGGATGGAGCTGGCTTTCCTGCAAGAGTAACAGCTCATTTTGTTGCCGTGGAGGGCCAAGCGCGGCCCCGCACAACTATATTAATAAAATTTG




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