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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcctacccatcattcaaaacactttgcctcacaatttgtagatgtgttttcttttattctttccgaatactactcccaatgaagtacgctccttcaagctgtatcaatataacatgcagttctctatctcatttctggttttgtaacgttcagACTGTGGACGAGCTCTACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTCACTGGACAAATCATG

Basic information

species Physcomitrella patens
transcript PP1S215_28V6.1
intron # 8
splice site 3'
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|162177268|gb|FC353425.1|FC353425
EST:     GTGGACAGCGAGGTGGATACTTTGAAATGACCAATATTCACCCCAAG                         ACTGTGGACGAGCTCTACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTC
genomic: GTGGACAGCGAGGTGGATACTTTGAAATGACCAATATTCACCCCAAGgttcctaccc ... taacgttcagACTGTGGACGAGCTCTACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTC
EST: gi|162178885|gb|FC354817.1|FC354817
EST:     AGTGTGGACAGCGAGGTGGATACTTTGAAATGACCAATATTCACCCCAAG                         ACTGTGGACGAGCTCTACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTC
genomic: AGTGTGGACAGCGAGGTGGATACTTTGAAATGACCAATATTCACCCCAAGgttcctaccc ... taacgttcagACTGTGGACGAGCTCTACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTC
EST: gi|162179082|gb|FC356483.1|FC356483
EST:     GTGGACAGCGAGGTGGATACTTTGAAATGACCAATATTCACCCCAAG                         ACTGTGGACGAGCTCTACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTC
genomic: GTGGACAGCGAGGTGGATACTTTGAAATGACCAATATTCACCCCAAGgttcctaccc ... taacgttcagACTGTGGACGAGCTCTACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTC
EST: gi|162186162|gb|FC361366.1|FC361366
EST:     AGTGTGGACAGCGAGGTGGATACTTTGAAATGACCAATATTCACCCCAAG                         ACTGTGGACGAGCTCTACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTC
genomic: AGTGTGGACAGCGAGGTGGATACTTTGAAATGACCAATATTCACCCCAAGgttcctaccc ... taacgttcagACTGTGGACGAGCTCTACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTC
EST: gi|162189252|gb|FC366748.1|FC366748
EST:     GATACTTTGAAATGACCAATATTCACCCCAAG                         ACTGTGGACGAGCTCTACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTC
genomic: GATACTTTGAAATGACCAATATTCACCCCAAGgttcctaccc ... taacgttcagACTGTGGACGAGCTCTACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTC
EST: gi|162269857|gb|FC445387.1|FC445387
EST:     AGTGTGGACAGCGAGGTGGATACTTTGAAATGACCAATATTCACCCCAAG                         ACTGTGGACGAGCTCTACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTC
genomic: AGTGTGGACAGCGAGGTGGATACTTTGAAATGACCAATATTCACCCCAAGgttcctaccc ... taacgttcagACTGTGGACGAGCTCTACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTC
EST: gi|162217937|gb|FC393933.1|FC393933
EST:     AGTGTGGACAGCGAGGTGGATACTTTGAAATGACCAATATTCACCCCAAG                         ACTGTGGACGAGCTCTACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTC
genomic: AGTGTGGACAGCGAGGTGGATACTTTGAAATGACCAATATTCACCCCAAGgttcctaccc ... taacgttcagACTGTGGACGAGCTCTACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTC
EST: gi|162151906|gb|FC328152.1|FC328152
EST:     AGTGTGGACAGCGAGGTGGATACTTTGAAATGACCAATATTCACCCCAAG                         ACTGTGGACGAGCTCTACAAGGTTT
genomic: AGTGTGGACAGCGAGGTGGATACTTTGAAATGACCAATATTCACCCCAAGgttcctaccc ... taacgttcagACTGTGGACGAGCTCTACAAGGTTT

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), 34 (downstream exon)
Score: 44

AGCTCTGGAGTTGGTTTCATTCCACACGGTGTCGAAGGGTTTCCTCGGAGAGTGTGGACAGCGAGGTGGATACTTTGAAATGACCAATATTCACCCCAAGgttcctaccc ... taacgttcagACTGTGGACGAGCTCTACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTCACTGGACAAATCATG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgtatcaatataacatgcagttctctatctcatttctggttttgtaacgttcagACTGTGGACGAGCTCTACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTCACTGGACAAATCATG
                                          ttgtaac  putative branch site (score: 44)
       aatataacat  TA-rich tract