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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTGGTATGTTTTGCTTCAGCGGTTTGAAGCCTGAGCAAGTAGATCGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAGgtactcattcaatctcaacactaaacaattgtacgtgaatttgacacattaatctattaaagtaatctagtaaccgagtgcaaagtcggttccttggtct...

Basic information

species Physcomitrella patens
transcript PP1S223_31V6.1
intron # 9
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|37847595|gb|BJ605603.1|BJ605603
EST:     CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAG                         TATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
genomic: CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAGgtactcattc ... tgtgttgcagTATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
EST: gi|37840459|gb|BJ598467.1|BJ598467
EST:     CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAG                         TATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
genomic: CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAGgtactcattc ... tgtgttgcagTATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
EST: gi|162214195|gb|FC390241.1|FC390241
EST:     CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAG                         TATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
genomic: CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAGgtactcattc ... tgtgttgcagTATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
EST: gi|162192505|gb|FC371696.1|FC371696
EST:     CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAG                         TATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
genomic: CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAGgtactcattc ... tgtgttgcagTATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
EST: gi|37845929|gb|BJ603937.1|BJ603937
EST:     CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAG                         TATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
genomic: CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAGgtactcattc ... tgtgttgcagTATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
EST: gi|208369208|gb|DC955837.1|DC955837
EST:     CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAG                         TATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
genomic: CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAGgtactcattc ... tgtgttgcagTATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
EST: gi|37822610|gb|BJ580676.1|BJ580676
EST:     CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAG                         TATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
genomic: CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAGgtactcattc ... tgtgttgcagTATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
EST: gi|37827861|gb|BJ585873.1|BJ585873
EST:     CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAG                         TATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
genomic: CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAGgtactcattc ... tgtgttgcagTATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
EST: gi|162164021|gb|FC339309.1|FC339309
EST:     CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAG                         TATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
genomic: CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAGgtactcattc ... tgtgttgcagTATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
EST: gi|162221031|gb|FC398283.1|FC398283
EST:     CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAG                         TATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
genomic: CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAGgtactcattc ... tgtgttgcagTATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
EST: gi|162221032|gb|FC398284.1|FC398284
EST:     CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAG                         TATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
genomic: CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAGgtactcattc ... tgtgttgcagTATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
EST: gi|162198688|gb|FC373469.1|FC373469
EST:     CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAG                         TATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
genomic: CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAGgtactcattc ... tgtgttgcagTATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
EST: gi|162257989|gb|FC434083.1|FC434083
EST:     CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAG                         TATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
genomic: CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAGgtactcattc ... tgtgttgcagTATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
EST: gi|208348127|gb|DC916937.1|DC916937
EST:     CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAG                         TATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
genomic: CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAGgtactcattc ... tgtgttgcagTATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
EST: gi|67724754|gb|BJ975013.1|BJ975013
EST:     CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAG                         TATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
genomic: CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAGgtactcattc ... tgtgttgcagTATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
EST: gi|37852295|gb|BJ610303.1|BJ610303
EST:     CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAG                         TATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
genomic: CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAGgtactcattc ... tgtgttgcagTATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
EST: gi|37822517|gb|BJ580583.1|BJ580583
EST:     CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAG                         TATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
genomic: CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAGgtactcattc ... tgtgttgcagTATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
EST: gi|67725499|gb|BJ975758.1|BJ975758
EST:     CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAG                         TATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
genomic: CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAGgtactcattc ... tgtgttgcagTATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
EST: gi|162256779|gb|FC432673.1|FC432673
EST:     CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAG                         TATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
genomic: CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAGgtactcattc ... tgtgttgcagTATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
EST: gi|162244629|gb|FC423452.1|FC423452
EST:     CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAG                         TATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA
genomic: CGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAGgtactcattc ... tgtgttgcagTATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCA

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), 25 (downstream exon)
Score: 5

ATTGGTATGTTTTGCTTCAGCGGTTTGAAGCCTGAGCAAGTAGATCGTTTAACGAAGGATTTCCATATCTACCTCACACGCAATGGCCGCATCAGgtactcattc ... tgtgttgcagTATGGCCGGTATCACTACTTCCAATGTGGAATATCTTGCTAATGCCATCCACGAGGTTTCCAAGAACTAGGAGGTTTCCAAGGACTAGGAGGTTGAGAAA




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