Skip to another splice site:
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgtttattttagggtttgcaaaatattgccttgtatacattgtagagaatattaatatgttcaaatgtaactggtgtgaagttcgctttaagg...

Basic information

species Physcomitrella patens
transcript PP1S98_136V6.1
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|67578663|gb|BJ950830.1|BJ950830
EST:     TGGTTCATTTACCNGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGC
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGC
EST: gi|162236291|gb|FC411410.1|FC411410
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|67574583|gb|BJ947407.1|BJ947407
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|162262839|gb|FC438751.1|FC438751
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|162216551|gb|FC392448.1|FC392448
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|162269838|gb|FC445888.1|FC445888
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|67701028|gb|BJ961261.1|BJ961261
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|162263118|gb|FC439784.1|FC439784
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|162276312|gb|FC452419.1|FC452419
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|67700665|gb|BJ960898.1|BJ960898
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACCAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACCAGAAGGCAAAGATCCACTGG
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGAC-AGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAAC-AGAAGGCAAAGATC-ACTGG
EST: gi|67691902|gb|BJ952135.1|BJ952135
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACCTGGAN
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCAC-TGGA-
EST: gi|162223989|gb|FC400347.1|FC400347
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|67578873|gb|BJ951040.1|BJ951040
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|67507607|gb|BJ940488.1|BJ940488
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|162226370|gb|FC403286.1|FC403286
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|162236290|gb|FC411409.1|FC411409
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|67572078|gb|BJ944902.1|BJ944902
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|7583735|gb|AW699641.1|AW699641
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|15728457|gb|BI740797.1|BI740797
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|37847166|gb|BJ605174.1|BJ605174
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|162202536|gb|FC380051.1|FC380051
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|162226371|gb|FC403287.1|FC403287
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|67508677|gb|BJ941538.1|BJ941538
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|67694743|gb|BJ954976.1|BJ954976
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACC
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGAC-
EST: gi|67578161|gb|BJ950328.1|BJ950328
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|19790227|gb|BQ041763.1|BQ041763
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAG
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAG
EST: gi|67695443|gb|BJ955676.1|BJ955676
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACC
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGAC-
EST: gi|162256658|gb|FC433176.1|FC433176
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|67698000|gb|BJ958233.1|BJ958233
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACC
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGAC-
EST: gi|67578455|gb|BJ950622.1|BJ950622
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|67701356|gb|BJ961589.1|BJ961589
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|162261462|gb|FC438298.1|FC438298
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|67571784|gb|BJ944608.1|BJ944608
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|162202537|gb|FC380052.1|FC380052
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|18366775|gb|BJ198854.1|BJ198854
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAA
EST: gi|162210330|gb|FC386210.1|FC386210
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|162246712|gb|FC424694.1|FC424694
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|162269839|gb|FC445889.1|FC445889
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|162210329|gb|FC386209.1|FC386209
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACA
EST: gi|67695152|gb|BJ955385.1|BJ955385
EST:     TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG                         GGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGANC
genomic: TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGA-C

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: 74

TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAGgttagtacgt ... gatgctgcagGGAGGAGCTTTTGAAGCTTATTGATGAACAGAAGGCAAAGATCACTGGACAGTGAGGTTAAATTGTACTGTACTATTCAATTTGAGAATTAAAATAAAGG




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