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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTGGAGAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTGgtgagtatgcttgtcctgtattagcattggtcgtttgatttttccacattgtgaatggttgcattgtgcttagaatgagcgcagtattgtaaactactggttctaaatcgttcacaacgaaatgattggtattcag

Basic information

species Physcomitrella patens
transcript PP1S426_34V6.1
intron # 7
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|162236818|gb|FC412561.1|FC412561
EST:     GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTG                         GAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
genomic: GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTGgtgagtatgc ... tggtattcagGAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
EST: gi|208369961|gb|DC948084.1|DC948084
EST:     GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTG                         GAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
genomic: GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTGgtgagtatgc ... tggtattcagGAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
EST: gi|162217444|gb|FC393120.1|FC393120
EST:     GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTG                         GAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
genomic: GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTGgtgagtatgc ... tggtattcagGAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
EST: gi|18335121|gb|BJ167139.1|BJ167139
EST:     GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTG                         GAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
genomic: GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTGgtgagtatgc ... tggtattcagGAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
EST: gi|162160225|gb|FC337122.1|FC337122
EST:     GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCNG                         GAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
genomic: GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTGgtgagtatgc ... tggtattcagGAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
EST: gi|208355863|gb|DC930226.1|DC930226
EST:     GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTG                         GAAATATATTATTCGTAATTACTGCGCTCTACATCCTC
genomic: GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTGgtgagtatgc ... tggtattcagGAAATATATTATTCGTAATTACTGCGCTCTACATCCTC
EST: gi|208347818|gb|DC917567.1|DC917567
EST:     GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTG                         GAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
genomic: GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTGgtgagtatgc ... tggtattcagGAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
EST: gi|100447366|gb|CJ971665.1|CJ971665
EST:     GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTG                         GAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
genomic: GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTGgtgagtatgc ... tggtattcagGAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
EST: gi|208367118|gb|DC947824.1|DC947824
EST:     GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTG                         GAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
genomic: GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTGgtgagtatgc ... tggtattcagGAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
EST: gi|7582943|gb|AW699107.1|AW699107
EST:     GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTG                         GAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
genomic: GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTGgtgagtatgc ... tggtattcagGAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
EST: gi|100358169|gb|BY965507.1|BY965507
EST:     GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGGTCTCTTCTTATCTG                         GAA-TATATTATTCGTAATTACTGCGCTCTACATCCTCCAA-CATCGAAGG
genomic: GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTGgtgagtatgc ... tggtattcagGAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
EST: gi|208392547|gb|DC933947.1|DC933947
EST:     GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTG                         GAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
genomic: GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTGgtgagtatgc ... tggtattcagGAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
EST: gi|162236819|gb|FC412562.1|FC412562
EST:     GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTG                         GAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCANACATCGAAGG
genomic: GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTGgtgagtatgc ... tggtattcagGAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
EST: gi|162160226|gb|FC337123.1|FC337123
EST:     GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTG                         GAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCG
genomic: GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTGgtgagtatgc ... tggtattcagGAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCG
EST: gi|162217443|gb|FC393119.1|FC393119
EST:     GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTG                         GAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
genomic: GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTGgtgagtatgc ... tggtattcagGAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
EST: gi|208360526|gb|DC950072.1|DC950072
EST:     GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTG                         GAAATATATTATTCGTAATCACTGCGCTCTACATCCTCCAAACATCGAAGG
genomic: GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTGgtgagtatgc ... tggtattcagGAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
EST: gi|19790032|gb|BQ041658.1|BQ041658
EST:     GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTG                         GAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
genomic: GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTGgtgagtatgc ... tggtattcagGAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
EST: gi|37846197|gb|BJ604205.1|BJ604205
EST:     GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTG                         GAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
genomic: GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTGgtgagtatgc ... tggtattcagGAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
EST: gi|208378639|gb|DC903670.1|DC903670
EST:     GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTG                         GAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
genomic: GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTGgtgagtatgc ... tggtattcagGAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
EST: gi|208374026|gb|DC944759.1|DC944759
EST:     GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTG                         GAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
genomic: GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTGgtgagtatgc ... tggtattcagGAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGG
EST: gi|208390426|gb|DC933683.1|DC933683
EST:     GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCNTATCTG                         GAAAAATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAA
genomic: GAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTGgtgagtatgc ... tggtattcagGAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAA

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), 27 (downstream exon)
Score: 8

GGTGGAGAAGTCAGAGATTGATGTTGTCGGGGGTCTCTTTGTTCTCTTCTTATCTGgtgagtatgc ... tggtattcagGAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAG




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