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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTATGGATACAACAAGGGTGACATTGGAAAGCTGTTCATAGCTGGATTTGGATCCTCGATGATCTTCGGGACTGTTGTCGGATCTCTTGCCGATCGATAgtacgtgtgtttatgcccatgtttgcatctcaggagtggtctattttccttgctcccatcattttcgtggctgacttgagaacattgaaaggcttacttg...

Basic information

species Physcomitrella patens
transcript PP1S8_271V6.1
intron # 2
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|162186225|gb|FC362157.1|FC362157
EST:     GGATCCTCGATGATCTTCGGGACTGTTGTCGGATCTCTTGCCGATCGATA                         TGGGCGCAAGAGGATGAGTGTCATCTACTGTATCACATATATTCTGAGTTG
genomic: GGATCCTCGATGATCTTCGGGACTGTTGTCGGATCTCTTGCCGATCGATAgtacgtgtgt ... ttgcttatagTGGGCGCAAGAGGATGAGTGTCATCTACTGTATCACATATATTCTGAGTTG
EST: gi|162171811|gb|FC348454.1|FC348454
EST:     GGATCCTCGATGATCTTCGGGACTGTTGTCGGATCTCTTGCCGATCGATA                         TGGGCGCAAGAGGATGAGTGTCATCTACTGTATCACATATATTCTGAGTTG
genomic: GGATCCTCGATGATCTTCGGGACTGTTGTCGGATCTCTTGCCGATCGATAgtacgtgtgt ... ttgcttatagTGGGCGCAAGAGGATGAGTGTCATCTACTGTATCACATATATTCTGAGTTG
EST: gi|162274080|gb|FC450152.1|FC450152
EST:     GGATCCTCGATGATCTTCGGGACTGTTGTCGGATCTCTTGCCGATCGATA                         TGGGCGCAAGAGGATGAGTGTCATCTACTGTATCACATATATTCTGAGTTG
genomic: GGATCCTCGATGATCTTCGGGACTGTTGTCGGATCTCTTGCCGATCGATAgtacgtgtgt ... ttgcttatagTGGGCGCAAGAGGATGAGTGTCATCTACTGTATCACATATATTCTGAGTTG
EST: gi|208393132|gb|DC929627.1|DC929627
EST:     GGATCCTCGATGATCTTCGGGACTGTTGTCGGATCTCTTGCCGATCGATA                         TGGGCGCAAGAGGATGAGTGTCATCTACTGTATCACATATATTCTGAGTTG
genomic: GGATCCTCGATGATCTTCGGGACTGTTGTCGGATCTCTTGCCGATCGATAgtacgtgtgt ... ttgcttatagTGGGCGCAAGAGGATGAGTGTCATCTACTGTATCACATATATTCTGAGTTG
EST: gi|208400682|gb|DC904860.1|DC904860
EST:     GGATCCTCGATGATCTTCCGGACTGTTGTCGGATCTCTTGCCGATCGATA                         TGGGCGCAAGANGATGAGTGTCATCTACTGTATCACATANATTCTGAGTTG
genomic: GGATCCTCGATGATCTTCGGGACTGTTGTCGGATCTCTTGCCGATCGATAgtacgtgtgt ... ttgcttatagTGGGCGCAAGAGGATGAGTGTCATCTACTGTATCACATATATTCTGAGTTG
EST: gi|100362618|gb|BY947443.1|BY947443
EST:     GGATCCTCGATGATCTTCGGGACTGTTGTCGGATCTCTTGCCGATCGATA                         TGGGCGCAAGAGGATGAGTGTCATCTACTGTATCACATATATTCTGAGTTT
genomic: GGATCCTCGATGATCTTCGGGACTGTTGTCGGATCTCTTGCCGATCGATAgtacgtgtgt ... ttgcttatagTGGGCGCAAGAGGATGAGTGTCATCTACTGTATCACATATATTCTGAGTT-
EST: gi|18370368|gb|BJ201970.1|BJ201970
EST:     GGATCCTCGATGATCTTCGGGACTGTTGTCGGATCTCTTGCCGATCGATA                         TGGGCGCAAGAGGATGAGTGTCATCTACTGTATCACATATATTCTGAGTTG
genomic: GGATCCTCGATGATCTTCGGGACTGTTGTCGGATCTCTTGCCGATCGATAgtacgtgtgt ... ttgcttatagTGGGCGCAAGAGGATGAGTGTCATCTACTGTATCACATATATTCTGAGTTG
EST: gi|208370329|gb|DC931741.1|DC931741
EST:     GGATCCTCGATGATCTTCGGGACTGTTGTCGGATCTCTTGCCGATCGATA                         TGGGCGCAAGAGGATGANTGTCATCTACTGTATCACATATATTCTGAGTTG
genomic: GGATCCTCGATGATCTTCGGGACTGTTGTCGGATCTCTTGCCGATCGATAgtacgtgtgt ... ttgcttatagTGGGCGCAAGAGGATGAGTGTCATCTACTGTATCACATATATTCTGAGTTG
EST: gi|100389402|gb|BY988880.1|BY988880
EST:     GGATCCTCGATGATCTTCGGGACTGTTGTCGGATCTCTTGCCGATCGATA                         TGGGCGCAAGAGGATGAGTGTCATCTACTGTATCACATATATTCTGAGTTG
genomic: GGATCCTCGATGATCTTCGGGACTGTTGTCGGATCTCTTGCCGATCGATAgtacgtgtgt ... ttgcttatagTGGGCGCAAGAGGATGAGTGTCATCTACTGTATCACATATATTCTGAGTTG
EST: gi|162187639|gb|FC364096.1|FC364096
EST:     GGATCCTCGATGATCTTCGGGACTGTTGTCGGATCTCTTGCCGATCGATA                         TGGGCGCAAGAGGATGAGTGTCATCTACTGTATCACATATATTCTGAGTTG
genomic: GGATCCTCGATGATCTTCGGGACTGTTGTCGGATCTCTTGCCGATCGATAgtacgtgtgt ... ttgcttatagTGGGCGCAAGAGGATGAGTGTCATCTACTGTATCACATATATTCTGAGTTG

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: 29 (upstream exon), 21 (downstream exon)
Score: 5

TTTATGGATACAACAAGGGTGACATTGGAAAGCTGTTCATAGCTGGATTTGGATCCTCGATGATCTTCGGGACTGTTGTCGGATCTCTTGCCGATCGATAgtacgtgtgt ... ttgcttatagTGGGCGCAAGAGGATGAGTGTCATCTACTGTATCACATATATTCTGAGTTGTTTCACGAAGCATTCTCCAGCATACAGAGTGTTGATGTTGGGACGTGTG




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