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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCTCTTTATCTTTATCCGTTTCTCAACACAGTGAGCAAAACGAGGCCGTTTGAATATCTTCGACTTACGAGCCTGGGAGTCATTGGTGCCCTTGTCAAGgtgcttttgtcaattccagtgatgtcagtcgttcaggagctgagggggagcttaatgtggagggcatgtttttattttttgtttttgaacagttgttaat...

Basic information

species Physcomitrella patens
transcript PP1S276_27V6.1
intron # 5
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|208390704|gb|DC937860.1|DC937860
EST:     TTGAATATCTTCGACTTACGAGCCTGGGAGTCATTGGTGCCCTTGTCAAG                         GTGGATGACACTGAAGTTATTAATTTCCTACTGTCAACCGAGATTATTCCT
genomic: TTGAATATCTTCGACTTACGAGCCTGGGAGTCATTGGTGCCCTTGTCAAGgtgcttttgt ... atatctgcagGTGGATGACACTGAAGTTATTAATTTCCTACTGTCAACCGAGATTATTCCT
EST: gi|208385972|gb|DC956810.1|DC956810
EST:     GGAGTCATTGGTGCCCCTGTCAAG                         GTGGATGACACTGAAGTTATTAATTTCCTACTGTCAACCGAGATTATTCCT
genomic: GGAGTCATTGGTGCCCTTGTCAAGgtgcttttgt ... atatctgcagGTGGATGACACTGAAGTTATTAATTTCCTACTGTCAACCGAGATTATTCCT
EST: gi|208372489|gb|DC948729.1|DC948729
EST:     TTGAATAT-TTCGACTTACGAGCCTGGGAGTCATTGGTGCCCTTGTCAAG                         GTGGATGACACTGAAGTTATTAATTTCCTACTGTCAACCGAGATTATTCCT
genomic: TTGAATATCTTCGACTTACGAGCCTGGGAGTCATTGGTGCCCTTGTCAAGgtgcttttgt ... atatctgcagGTGGATGACACTGAAGTTATTAATTTCCTACTGTCAACCGAGATTATTCCT
EST: gi|162181709|gb|FC358739.1|FC358739
EST:     TTGAATATCTTCGACTTACGAGCCTGGGAGTCATTGGTGCCCTTGTCAAG                         GTGGATGACACTGAAGTTATTAATTTCCTACTGTCAACCGAGATTATTCCT
genomic: TTGAATATCTTCGACTTACGAGCCTGGGAGTCATTGGTGCCCTTGTCAAGgtgcttttgt ... atatctgcagGTGGATGACACTGAAGTTATTAATTTCCTACTGTCAACCGAGATTATTCCT
EST: gi|208364640|gb|DC935425.1|DC935425
EST:     TTGAATATCTTCGACTTACGAGCCTGGGAGTCATTGGTGCCCTTGTCAAG                         GTGGATGACACTGAAGTTATTAATTTCCTACTGTCAACCGAGATTATTCCT
genomic: TTGAATATCTTCGACTTACGAGCCTGGGAGTCATTGGTGCCCTTGTCAAGgtgcttttgt ... atatctgcagGTGGATGACACTGAAGTTATTAATTTCCTACTGTCAACCGAGATTATTCCT
EST: gi|100389661|gb|BY952467.1|BY952467
EST:     TGAATATCTTCGACTTACGAGCCTGGGAGTCATTGGTGCCCTTGTNCA-G                         GTGGATGACACTGAAGTTATTAATTTCCTACTGTNCA-CCGAGATTATTC
genomic: TGAATATCTTCGACTTACGAGCCTGGGAGTCATTGGTGCCCTTGT-CAAGgtgcttttgt ... atatctgcagGTGGATGACACTGAAGTTATTAATTTCCTACTGT-CAACCGAGATTATTC
EST: gi|208359584|gb|DC934599.1|DC934599
EST:     TTGAATATCTTCGACTTACGAGCCTGGGAGTCATTGGTGCCCTTGTCAAG                         GTGGATGACACTGAAGTTATTAATTTCCTACTGTCAACCGAGATTATTCCT
genomic: TTGAATATCTTCGACTTACGAGCCTGGGAGTCATTGGTGCCCTTGTCAAGgtgcttttgt ... atatctgcagGTGGATGACACTGAAGTTATTAATTTCCTACTGTCAACCGAGATTATTCCT

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), 11 (downstream exon)
Score: 3

TCCTCTTTATCTTTATCCGTTTCTCAACACAGTGAGCAAAACGAGGCCGTTTGAATATCTTCGACTTACGAGCCTGGGAGTCATTGGTGCCCTTGTCAAGgtgcttttgt ... atatctgcagGTGGATGACACTGAAGTTATTAATTTCCTACTGTCAACCGAGATTATTCCTCTGTGCCTACGAACGATGGAGATGGGAAGTGAACTATCCAAGACA




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