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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTCCTTGAAGAGCGTATTACTGGGCGGTGGATTCACCCCGCTAGTGGCCGATCTTATCACTCCAAGTTTGCACCCCCGAAGGTGCCTGGCCGTGATGACgtaagttttacgttctctaaatcttgacatgttttttttacatttagtcgtaataaatgtatacacacacacacacacagattcttcgcagcgtttttag...

Basic information

species Physcomitrella patens
transcript PP1S61_267V6.1
intron # 4
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|37850614|gb|BJ608622.1|BJ608622
EST:     GATCTTATCACTCCAAGTTTGCACCCCCGAAGGTGCCTGGCCGTGATGAC                         ATTACTGGAGAGCCTTTGTTGCAGCGCAAGGATGACACTGTGGAAGTGCTT
genomic: GATCTTATCACTCCAAGTTTGCACCCCCGAAGGTGCCTGGCCGTGATGACgtaagtttta ... tggtcggcagATTACTGGAGAGCCTTTGTTGCAGCGCAAGGATGACACTGTGGAAGTGCTT
EST: gi|208373590|gb|DC952415.1|DC952415
EST:     GATCTTATCACTCCAAGTTTGCACCCCCGAAGGTGCCTGGCCGTGATGAC                         ATTACTGGAGAGCCTTTGTTGCAGCGCAAGGATGACACTGTGGAAGTGCTT
genomic: GATCTTATCACTCCAAGTTTGCACCCCCGAAGGTGCCTGGCCGTGATGACgtaagtttta ... tggtcggcagATTACTGGAGAGCCTTTGTTGCAGCGCAAGGATGACACTGTGGAAGTGCTT
EST: gi|7147997|gb|AW509919.1|AW509919
EST:     GATCTTATCACTCCAAGTTTGCACCCGCGAAGGTGCCTGGCCGTGATGAC                         ATTACTGGAGAGCCTTTGCTGCATCGCAAGGATGACACTGTGGAAGTGCTT
genomic: GATCTTATCACTCCAAGTTTGCACCCCCGAAGGTGCCTGGCCGTGATGACgtaagtttta ... tggtcggcagATTACTGGAGAGCCTTTGTTGCAGCGCAAGGATGACACTGTGGAAGTGCTT
EST: gi|37849264|gb|BJ607272.1|BJ607272
EST:     ACTCCAAGTTTGCACCCCCGAAGGTGCCTGGCCGTGATGAC                         ATTACTGGAGAGCCTTTGTTGCAGCGCAAGGATGACACTGTGGAAGTGCTT
genomic: ACTCCAAGTTTGCACCCCCGAAGGTGCCTGGCCGTGATGACgtaagtttta ... tggtcggcagATTACTGGAGAGCCTTTGTTGCAGCGCAAGGATGACACTGTGGAAGTGCTT
EST: gi|208363576|gb|DC939767.1|DC939767
EST:     GATCTTATCACTCCAAGTTTGCACCCCCGAAGGTGCCTGGCCGTGATGAC                         ATTACTGGAGAGCCTTTGTTGCAGCGCAAGAATGACACTGTGGAAGTGCTT
genomic: GATCTTATCACTCCAAGTTTGCACCCCCGAAGGTGCCTGGCCGTGATGACgtaagtttta ... tggtcggcagATTACTGGAGAGCCTTTGTTGCAGCGCAAGGATGACACTGTGGAAGTGCTT
EST: gi|208357429|gb|DC910742.1|DC910742
EST:     GATCTTATCACTCCAAGTTTGCACCCCCGAANGTGCCTGGCCGTGATGAC                         ATTACTGGAGAGCCTTTGTTGCAGCGCAAGGATGACACTGTGGAANTGCTT
genomic: GATCTTATCACTCCAAGTTTGCACCCCCGAAGGTGCCTGGCCGTGATGACgtaagtttta ... tggtcggcagATTACTGGAGAGCCTTTGTTGCAGCGCAAGGATGACACTGTGGAAGTGCTT
EST: gi|162152017|gb|FC328438.1|FC328438
EST:     GATCTTATCACTCCAAGTTTGCACCCCCGAAGGTGCCTGGCCGTGATGAC                         ATTACTGGAGAGCCTTTGTTGCAGCGCAAGGATGACACTGTGGAAGTGCTT
genomic: GATCTTATCACTCCAAGTTTGCACCCCCGAAGGTGCCTGGCCGTGATGACgtaagtttta ... tggtcggcagATTACTGGAGAGCCTTTGTTGCAGCGCAAGGATGACACTGTGGAAGTGCTT
EST: gi|162152018|gb|FC328439.1|FC328439
EST:     GATCTTATCACTCCAAGTTTGCACCCCCGAAGGTGCCTGGCCGTGATGAC                         ATTACTGGAGAGCCTTTGTTGCAGCGCAAGGATGACACTGTGGAAGTGCTT
genomic: GATCTTATCACTCCAAGTTTGCACCCCCGAAGGTGCCTGGCCGTGATGACgtaagtttta ... tggtcggcagATTACTGGAGAGCCTTTGTTGCAGCGCAAGGATGACACTGTGGAAGTGCTT
EST: gi|162258565|gb|FC434780.1|FC434780
EST:     GATCTTATCACTCCAAGTTTGCACCCCCGAAGGTGCCTGGCCGTGATGAC                         ATTACTGGAGAGCCTTTGTTGCAGCGCAAGGATGACACTGTGGAAGTGCTT
genomic: GATCTTATCACTCCAAGTTTGCACCCCCGAAGGTGCCTGGCCGTGATGACgtaagtttta ... tggtcggcagATTACTGGAGAGCCTTTGTTGCAGCGCAAGGATGACACTGTGGAAGTGCTT
EST: gi|162258566|gb|FC434781.1|FC434781
EST:     GATCTTATCACTCCAAGTTTGCACCCCCGAAGGTGCCTGGCCGTGATGAC                         ATTACTGGAGAGCCTTTGTTGCAGCGCAAGGATGACACTGTGGAAGTGCTT
genomic: GATCTTATCACTCCAAGTTTGCACCCCCGAAGGTGCCTGGCCGTGATGACgtaagtttta ... tggtcggcagATTACTGGAGAGCCTTTGTTGCAGCGCAAGGATGACACTGTGGAAGTGCTT
EST: gi|37849830|gb|BJ607838.1|BJ607838
EST:     CTTATCACTCCAAGTTTGCACCCCCGAAGGTGCCTGGCCGTGATGAC                         ATTACTGGAGAGCCTTTGTTGCAGCGCAAGGATGACACTGTGGAAGTGCTT
genomic: CTTATCACTCCAAGTTTGCACCCCCGAAGGTGCCTGGCCGTGATGACgtaagtttta ... tggtcggcagATTACTGGAGAGCCTTTGTTGCAGCGCAAGGATGACACTGTGGAAGTGCTT

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: 27 (upstream exon), 30 (downstream exon)
Score: 8

TGTCCTTGAAGAGCGTATTACTGGGCGGTGGATTCACCCCGCTAGTGGCCGATCTTATCACTCCAAGTTTGCACCCCCGAAGGTGCCTGGCCGTGATGACgtaagtttta ... tggtcggcagATTACTGGAGAGCCTTTGTTGCAGCGCAAGGATGACACTGTGGAAGTGCTTAAGAAGAGGCTATCGTCGTTCCACGAACAGACCACACCC




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