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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGCACTGCAGCAGTGGATGCAGATTATTGTTCCTTCCAAAGATTTCTTGTCATTTATGTTCTCTGTTATATTTTTCTCGTCCATGTACCCCGTCAAGTgtaagtattcctatcttcccaatattcccttgtttatccccctcattgcttgatgtatatgatcgataaaagtgaaggcttgtattaaacaagcattggc...

Basic information

species Physcomitrella patens
transcript PP1S42_16V6.1
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|162237826|gb|FC412479.1|FC412479
EST:     TTTTTCTCGTCCATGTACCCCGTCAAGT                         TTGCGGTGATCCCTGTTCTTTGCCGGTCTTTGGAGCAAGCAGTGATGTTCT
genomic: TTTTTCTCGTCCATGTACCCCGTCAAGTgtaagtattc ... gtgtacgcagTTGCGGTGATCCCTGTTCTTTGCCGGTCTTTGGAGCAAGCAGTGATGTTCT
EST: gi|162231292|gb|FC406533.1|FC406533
EST:     GTCATTTATGTTCTCTGTTATATTTTTCTCGTCCATGTACCCCGTCAAGT                         TTGCGGTGATCCCTGTTCTTTGCCGGTCTTTGGAGCAAGCAGTGATGTTCT
genomic: GTCATTTATGTTCTCTGTTATATTTTTCTCGTCCATGTACCCCGTCAAGTgtaagtattc ... gtgtacgcagTTGCGGTGATCCCTGTTCTTTGCCGGTCTTTGGAGCAAGCAGTGATGTTCT
EST: gi|162231291|gb|FC406532.1|FC406532
EST:     GTCATTTATGTTCTCTGTTATATTTTTCTCGTCCATGTACCCCGTCAAGT                         NTGCGGTGATCCCTGTTCTTTGCCGGTCTTTGGAGCAAGCAGTGATGTTCT
genomic: GTCATTTATGTTCTCTGTTATATTTTTCTCGTCCATGTACCCCGTCAAGTgtaagtattc ... gtgtacgcagTTGCGGTGATCCCTGTTCTTTGCCGGTCTTTGGAGCAAGCAGTGATGTTCT
EST: gi|162237827|gb|FC412480.1|FC412480
EST:     GTCATTTATGTTCTCTGTTATATTTTTCTCGTCCATGTACCCCGTCAAGT                         TTGCGGTGATCCCTGTTCTTTGCCGGTCTTTGGAGCAAGCAGTGATGTTCT
genomic: GTCATTTATGTTCTCTGTTATATTTTTCTCGTCCATGTACCCCGTCAAGTgtaagtattc ... gtgtacgcagTTGCGGTGATCCCTGTTCTTTGCCGGTCTTTGGAGCAAGCAGTGATGTTCT
EST: gi|37847707|gb|BJ605715.1|BJ605715
EST:     GTCATTTATGTTCTCTGTTATATTTTTCTCGTCCATGTACCCCGTCAAGT                         TTGCGGTGATCCCTGTTCTTTGCCGGTCTTTGGAGCAAGCAGTGATGTTCT
genomic: GTCATTTATGTTCTCTGTTATATTTTTCTCGTCCATGTACCCCGTCAAGTgtaagtattc ... gtgtacgcagTTGCGGTGATCCCTGTTCTTTGCCGGTCTTTGGAGCAAGCAGTGATGTTCT
EST: gi|208376982|gb|DC911050.1|DC911050
EST:     GNCATTTATGTTCTCTGTTATATTTTTCTCGTCCATGTACCCCGTCAAGT                         TTGCGGTGATCCNTGTTCTT
genomic: GTCATTTATGTTCTCTGTTATATTTTTCTCGTCCATGTACCCCGTCAAGTgtaagtattc ... gtgtacgcagTTGCGGTGATCCCTGTTCTT
EST: gi|162154890|gb|FC331932.1|FC331932
EST:     GTCATTTATGTTCTCTGTTATATTTTTCTCGTCCATGTACCCCGTCAAGT                         TTGCGGTGATCCCTGTTCTTTGCCGGTCTTTGGAGCAAGCAGTGATGTTCT
genomic: GTCATTTATGTTCTCTGTTATATTTTTCTCGTCCATGTACCCCGTCAAGTgtaagtattc ... gtgtacgcagTTGCGGTGATCCCTGTTCTTTGCCGGTCTTTGGAGCAAGCAGTGATGTTCT
EST: gi|208371600|gb|DC952242.1|DC952242
EST:     GTCATTTATGTTCTCTGTTATATTTTTCTCGTCCATGTACCCCGTCAAGT                         TTGCGGTGATCCCTGTTCTTTGCCGGTCTTTGGAGCAAGCAGTGATGTTCT
genomic: GTCATTTATGTTCTCTGTTATATTTTTCTCGTCCATGTACCCCGTCAAGTgtaagtattc ... gtgtacgcagTTGCGGTGATCCCTGTTCTTTGCCGGTCTTTGGAGCAAGCAGTGATGTTCT
EST: gi|208399430|gb|DC924860.1|DC924860
EST:     GTCATTTATGTTCTCTGTTATATTTTTCTCGTCCATGTACCCCGTCAAGT                         TTGCGGTGATCCCTGTTCTTTGCCGGTCTTTGGAGCAAGCAGTGATGTTCT
genomic: GTCATTTATGTTCTCTGTTATATTTTTCTCGTCCATGTACCCCGTCAAGTgtaagtattc ... gtgtacgcagTTGCGGTGATCCCTGTTCTTTGCCGGTCTTTGGAGCAAGCAGTGATGTTCT
EST: gi|37835310|gb|BJ593322.1|BJ593322
EST:     GTCATTTATGTTCTCTGTTATATTTTTCTCGTCCATGTACCCCGTCAAGT                         TTGCGGTGATCCCTGTTCTTTGCCGGTCTTTGGAGCAAGCAGTGATGTTCT
genomic: GTCATTTATGTTCTCTGTTATATTTTTCTCGTCCATGTACCCCGTCAAGTgtaagtattc ... gtgtacgcagTTGCGGTGATCCCTGTTCTTTGCCGGTCTTTGGAGCAAGCAGTGATGTTCT
EST: gi|162154889|gb|FC331931.1|FC331931
EST:     GTCATTTATGTTCTCTGTTATATTTTTCTCGTCCATGTACCCCGTCAAGT                         TTGCGGTGATCCCTGTTCTTTGCCGGTCTTTGGAGCAAGCAGTGATGTTCT
genomic: GTCATTTATGTTCTCTGTTATATTTTTCTCGTCCATGTACCCCGTCAAGTgtaagtattc ... gtgtacgcagTTGCGGTGATCCCTGTTCTTTGCCGGTCTTTGGAGCAAGCAGTGATGTTCT
EST: gi|100387757|gb|BY951757.1|BY951757
EST:     GTCATTTATGTTCTCTGTTATATTTTTCTCGCCCATGTACCCCGTCAAGT                         TTGCGGTGATCCCTGTTCTTTGGCGGTCTTTGGAGCAAGCA
genomic: GTCATTTATGTTCTCTGTTATATTTTTCTCGTCCATGTACCCCGTCAAGTgtaagtattc ... gtgtacgcagTTGCGGTGATCCCTGTTCTTTGCCGGTCTTTGGAGCAAGCA

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: 33 (upstream exon), 19 (downstream exon)
Score: 5

GAAGCACTGCAGCAGTGGATGCAGATTATTGTTCCTTCCAAAGATTTCTTGTCATTTATGTTCTCTGTTATATTTTTCTCGTCCATGTACCCCGTCAAGTgtaagtattc ... gtgtacgcagTTGCGGTGATCCCTGTTCTTTGCCGGTCTTTGGAGCAAGCAGTGATGTTCTTGCGCGGAAATTTTAACAACACGCAGCTTTACAA




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