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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACGGAGCCCCAGAACTGGTATAGTGCGAAGGTGATGGGCGTCTCTGACGTCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAGgtatagattctgttttccatgcttctctccgaacatcgccaaaccgtctctcaccgtgctattctcattaccttttattcagtggtcctttgagaagcca...

Basic information

species Physcomitrella patens
transcript PP1S9_406V6.1
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|162208966|gb|FC385310.1|FC385310
EST:     TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAG                         CTTGTGCCGTTGGAGAAGGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
genomic: TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAGgtatagattc ... ttgttcgcagCTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
EST: gi|208387052|gb|DC941224.1|DC941224
EST:     TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAG                         CTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
genomic: TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAGgtatagattc ... ttgttcgcagCTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
EST: gi|100438303|gb|BY979889.1|BY979889
EST:     TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAG                         CTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
genomic: TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAGgtatagattc ... ttgttcgcagCTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
EST: gi|162180809|gb|FC358310.1|FC358310
EST:     TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAG                         CTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
genomic: TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAGgtatagattc ... ttgttcgcagCTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
EST: gi|100435157|gb|BY979101.1|BY979101
EST:     TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAG                         CTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
genomic: TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAGgtatagattc ... ttgttcgcagCTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
EST: gi|100399723|gb|BY972860.1|BY972860
EST:     TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAG                         CTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
genomic: TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAGgtatagattc ... ttgttcgcagCTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
EST: gi|162197780|gb|FC375030.1|FC375030
EST:     TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAG                         CTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
genomic: TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAGgtatagattc ... ttgttcgcagCTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
EST: gi|19780118|gb|BQ039517.1|BQ039517
EST:     TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAG                         CTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
genomic: TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAGgtatagattc ... ttgttcgcagCTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
EST: gi|18330847|gb|BJ162853.1|BJ162853
EST:     TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAG                         CTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
genomic: TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAGgtatagattc ... ttgttcgcagCTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
EST: gi|67704584|gb|BJ964817.1|BJ964817
EST:     TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAG                         CTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
genomic: TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAGgtatagattc ... ttgttcgcagCTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
EST: gi|208380430|gb|DC907755.1|DC907755
EST:     TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAG                         CTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
genomic: TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAGgtatagattc ... ttgttcgcagCTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
EST: gi|100392187|gb|BY953237.1|BY953237
EST:     TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAG                         CTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
genomic: TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAGgtatagattc ... ttgttcgcagCTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
EST: gi|67573163|gb|BJ945987.1|BJ945987
EST:     TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAG                         CTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
genomic: TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAGgtatagattc ... ttgttcgcagCTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
EST: gi|162182936|gb|FC358981.1|FC358981
EST:     TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAG                         CTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
genomic: TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAGgtatagattc ... ttgttcgcagCTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
EST: gi|100448467|gb|CJ972766.1|CJ972766
EST:     TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAG                         CTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCNAAATT
genomic: TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAGgtatagattc ... ttgttcgcagCTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
EST: gi|100371022|gb|BY985899.1|BY985899
EST:     CGCCGCGGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAG                         CTTTGTGCCGTTGGAGGATGCCTACTTGAAGCCTGGGGAACATTGCCCAAA
genomic: CGCCGCGGGGG-TTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAGgtatagattc ... ttgttcgcagCTT-GTGCCGTTGGAGAATGCCTACGTGAAGCCTGGG-AACATTGCCCAAA
EST: gi|100429280|gb|BY978031.1|BY978031
EST:     TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAG                         CTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
genomic: TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAGgtatagattc ... ttgttcgcagCTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
EST: gi|162199066|gb|FC372391.1|FC372391
EST:     TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAG                         CTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
genomic: TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAGgtatagattc ... ttgttcgcagCTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
EST: gi|162158901|gb|FC334787.1|FC334787
EST:     TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAG                         CTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
genomic: TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAGgtatagattc ... ttgttcgcagCTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
EST: gi|162155129|gb|FC330923.1|FC330923
EST:     TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAG                         CTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT
genomic: TCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAGgtatagattc ... ttgttcgcagCTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATT

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: 24 (upstream exon), 30 (downstream exon)
Score: 5

CACGGAGCCCCAGAACTGGTATAGTGCGAAGGTGATGGGCGTCTCTGACGTCGCCGCGGGGGTTCGTTGCATCACCCTCATGACCGAAGTCTCCCGCGAGgtatagattc ... ttgttcgcagCTTGTGCCGTTGGAGAATGCCTACGTGAAGCCTGGGAACATTGCCCAAATTCGACTGGACGGCAAGGAGCTAACCGCCGTCCCTTCCAGCCCTCCGTTCT




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