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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACCTGCACTTAGAGTCTGTCTGGCAGCCGGGTTGTGTCAGTTAGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGgtatcagatcgccagtagccaaacagtcttctctatatcatttctgagcttaaagatgtcgttgcagtctcaattgtgcgtggcaaccatttctgtccacagaggctaacactgatcgagtttctattgcggagcag

Basic information

species Physcomitrella patens
transcript PP1S55_301V6.3
intron # 1
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|100385906|gb|BY951100.1|BY951100
EST:     AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTG                         GCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
genomic: AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGgtatcagatc ... tgcggagcagGCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
EST: gi|100436853|gb|BY979558.1|BY979558
EST:     AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTG                         GCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
genomic: AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGgtatcagatc ... tgcggagcagGCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
EST: gi|18327139|gb|BJ159140.1|BJ159140
EST:     AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTG                         GCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
genomic: AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGgtatcagatc ... tgcggagcagGCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
EST: gi|100438936|gb|BY961878.1|BY961878
EST:     AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTG                         GCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
genomic: AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGgtatcagatc ... tgcggagcagGCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
EST: gi|100441166|gb|BY980787.1|BY980787
EST:     AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTG                         GCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
genomic: AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGgtatcagatc ... tgcggagcagGCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
EST: gi|100448690|gb|CJ972989.1|CJ972989
EST:     AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTG                         GCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
genomic: AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGgtatcagatc ... tgcggagcagGCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
EST: gi|100367803|gb|BY984790.1|BY984790
EST:     AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTG                         GCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
genomic: AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGgtatcagatc ... tgcggagcagGCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
EST: gi|100441269|gb|BY962558.1|BY962558
EST:     AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTG                         GCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
genomic: AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGgtatcagatc ... tgcggagcagGCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
EST: gi|100385719|gb|BY987784.1|BY987784
EST:     AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTG                         GCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
genomic: AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGgtatcagatc ... tgcggagcagGCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
EST: gi|162181259|gb|FC357041.1|FC357041
EST:     AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTG                         GCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
genomic: AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGgtatcagatc ... tgcggagcagGCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
EST: gi|100444954|gb|BY982782.1|BY982782
EST:     AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGAGCAG                     
genomic: AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCT-----Ggtatcagatc ... tgcgga
EST: gi|18363932|gb|BJ196004.1|BJ196004
EST:     AGCGCATTAACTTCCGCAGCATCGCCCATTTTTTAAGATCCACAGTGCTG                         GCTGTGGAGCGGCACTANAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
genomic: AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGgtatcagatc ... tgcggagcagGCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
EST: gi|208391222|gb|DC933511.1|DC933511
EST:     AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTG                         GCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
genomic: AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGgtatcagatc ... tgcggagcagGCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
EST: gi|162181095|gb|FC357267.1|FC357267
EST:     AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTG                         GCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
genomic: AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGgtatcagatc ... tgcggagcagGCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
EST: gi|18372638|gb|BJ204240.1|BJ204240
EST:     AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTG                         GCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
genomic: AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGgtatcagatc ... tgcggagcagGCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
EST: gi|100416508|gb|BY975423.1|BY975423
EST:     AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTG                         GCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
genomic: AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGgtatcagatc ... tgcggagcagGCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
EST: gi|100446330|gb|CJ970629.1|CJ970629
EST:     AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTG                         GCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
genomic: AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGgtatcagatc ... tgcggagcagGCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
EST: gi|162246016|gb|FC424388.1|FC424388
EST:     AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTG                         GCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
genomic: AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGgtatcagatc ... tgcggagcagGCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
EST: gi|100450809|gb|CJ974450.1|CJ974450
EST:     AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTG                         GCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
genomic: AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGgtatcagatc ... tgcggagcagGCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
EST: gi|100450101|gb|CJ974094.1|CJ974094
EST:     AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTG                         GCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
genomic: AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGgtatcagatc ... tgcggagcagGCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
EST: gi|18326909|gb|BJ158909.1|BJ158909
EST:     AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTG                         GCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
genomic: AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGgtatcagatc ... tgcggagcagGCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
EST: gi|18365833|gb|BJ197911.1|BJ197911
EST:     AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTG                         GCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
genomic: AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGgtatcagatc ... tgcggagcagGCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
EST: gi|18359721|gb|BJ191782.1|BJ191782
EST:     AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTG                         GCTGCGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
genomic: AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGgtatcagatc ... tgcggagcagGCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
EST: gi|100356719|gb|BY965246.1|BY965246
EST:     AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTG                         GCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC
genomic: AGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGgtatcagatc ... tgcggagcagGCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGC

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: 46

CACCTGCACTTAGAGTCTGTCTGGCAGCCGGGTTGTGTCAGTTAGCGCATTAACTTCCGCAGCATCGCCCATTCTTTAAGATCCACAGTGCTGgtatcagatc ... tgcggagcagGCTGTGGAGCGGCACTAGAAGTGAGAGGGGGAGGAAGGGCTTGTTGAGTGCTCGGATTTCGGGAGCAAACCATGGCAAAAGACGTGGGCGTGGAGCCTGG




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