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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCACACATGGTCCACGATGAACATGACGAACACTTCCATGCTCTGGACAAGCAGgtaagctatggttcaaaaacttaggttgttgtgaccgtcatcgtcgtcgtcgtccgctgttcttgactgtcataatgaaagttgtgttgtgattttttatacgccgacttggctttttgattctattattatcctaactaatggaatttaccgcttgaaacag

Basic information

species Physcomitrella patens
transcript PP1S9_381V6.2
intron # 7
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|162153922|gb|FC329429.1|FC329429
EST:     ACATGGTCCACGATGAACATGACGAACACTTCCATGCTCTGGACAAGCAG                         CTAAACCAGGAAGCAATCGCTTTGGACTGGACGAAATCCGCTGGACACACT
genomic: ACATGGTCCACGATGAACATGACGAACACTTCCATGCTCTGGACAAGCAGgtaagctatg ... cttgaaacagCTAAACCAGGAAGCAATCGCTTTGGACTGGACGAAATCCGCTGGACACACT
EST: gi|162185271|gb|FC361781.1|FC361781
EST:     ACATGGTCCACGATGAACATGACGAACACTTCCATGCTCTGGACAAGCAG                         CTAAACCAGGAAGCAATCGCTTTGGACTGGACGAAATCCGCTGGACACACT
genomic: ACATGGTCCACGATGAACATGACGAACACTTCCATGCTCTGGACAAGCAGgtaagctatg ... cttgaaacagCTAAACCAGGAAGCAATCGCTTTGGACTGGACGAAATCCGCTGGACACACT
EST: gi|162156502|gb|FC332110.1|FC332110
EST:     ACATGGTCCACGATGAACATGACGAACACTTCCATGCTCTGGACAAGCAG                         CTAAACCAGGAAGCAATCGCTTTGGACTGGACGAAATCCGCTGGACACACT
genomic: ACATGGTCCACGATGAACATGACGAACACTTCCATGCTCTGGACAAGCAGgtaagctatg ... cttgaaacagCTAAACCAGGAAGCAATCGCTTTGGACTGGACGAAATCCGCTGGACACACT
EST: gi|162163549|gb|FC339459.1|FC339459
EST:     ACATGGTCCACGATGAACATGACGAACACTTCCATGCTCTGGACAAGCAG                         CTAAACCAGGAAGCAATCGCTTTGGACTGGACGAAATCCGCTGGACACACT
genomic: ACATGGTCCACGATGAACATGACGAACACTTCCATGCTCTGGACAAGCAGgtaagctatg ... cttgaaacagCTAAACCAGGAAGCAATCGCTTTGGACTGGACGAAATCCGCTGGACACACT
EST: gi|162167395|gb|FC343098.1|FC343098
EST:     ACATGGTCCACGATGAACATGACGAACACTTCCATGCTCTGGACAAGCAG                         CTAAACCAGGAAGCAATCGCTTTGGACTGGACGAAATCCGCTGGACACACT
genomic: ACATGGTCCACGATGAACATGACGAACACTTCCATGCTCTGGACAAGCAGgtaagctatg ... cttgaaacagCTAAACCAGGAAGCAATCGCTTTGGACTGGACGAAATCCGCTGGACACACT
EST: gi|162244461|gb|FC422634.1|FC422634
EST:     ACATGGTCCACGATGAACATGACGAACACTTCCATGCTCTGGACAAGCAG                         CTAAACCAGGAAGCAATCGCTTTGGACTGGACGAAATCCGCTGGACACACT
genomic: ACATGGTCCACGATGAACATGACGAACACTTCCATGCTCTGGACAAGCAGgtaagctatg ... cttgaaacagCTAAACCAGGAAGCAATCGCTTTGGACTGGACGAAATCCGCTGGACACACT
EST: gi|100413113|gb|BY992593.1|BY992593
EST:     ACATGGTCCACGATGAACATGACGAACACTTCCATGCTCTGGACAAGCAG                         CTAAACCAGGAAGCAATCGCTTTGGACTGGACGAAATCCGCTGGACACACT
genomic: ACATGGTCCACGATGAACATGACGAACACTTCCATGCTCTGGACAAGCAGgtaagctatg ... cttgaaacagCTAAACCAGGAAGCAATCGCTTTGGACTGGACGAAATCCGCTGGACACACT
EST: gi|162159143|gb|FC334314.1|FC334314
EST:     ACATGGTCCACGATGAACATGACGAACACTTCCATGCTCTGGACAAGCAG                         CTAAACCAGGAAGCAATCGCTTTGGACTGGACGAAATCCGCTGGACACACT
genomic: ACATGGTCCACGATGAACATGACGAACACTTCCATGCTCTGGACAAGCAGgtaagctatg ... cttgaaacagCTAAACCAGGAAGCAATCGCTTTGGACTGGACGAAATCCGCTGGACACACT
EST: gi|162257437|gb|FC433311.1|FC433311
EST:     ACATGGTCCACGATGAACATGACGAACACTTCCATGCTCTGGACAAGCAG                         CTAAACCAGGAAGCAATCGCTTTGGACTGGACGAAATCCGCTGGACACACT
genomic: ACATGGTCCACGATGAACATGACGAACACTTCCATGCTCTGGACAAGCAGgtaagctatg ... cttgaaacagCTAAACCAGGAAGCAATCGCTTTGGACTGGACGAAATCCGCTGGACACACT

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: 28

GCACACATGGTCCACGATGAACATGACGAACACTTCCATGCTCTGGACAAGCAGgtaagctatg ... cttgaaacagCTAAACCAGGAAGCAATCGCTTTGGACTGGACGAAATCCGCTGGACACACTTTGAATGGGTCTAGATTCATAGAAGATGACGACTCGCCTATGGATGTTG




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