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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTTTCTTTCAGGGTTTTAGAGGCTTTTCCAGGGTTTAGGGCCATGGCTACTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAGgtattacattcctgtgactaatgtttatactcttgcagttttcttttgtcaattcttgattaatggttggccatgtttgagtgagtacatatttgtacaa...

Basic information

species Physcomitrella patens
transcript PP1S101_184V6.1
intron # 1
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|162261824|gb|FC438348.1|FC438348
EST:     CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAG                         GGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
genomic: CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAGgtattacatt ... ttggttccagGGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
EST: gi|162265711|gb|FC443117.1|FC443117
EST:     CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAG                         GGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
genomic: CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAGgtattacatt ... ttggttccagGGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
EST: gi|100427283|gb|BY959068.1|BY959068
EST:     CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAG                         GGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
genomic: CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAGgtattacatt ... ttggttccagGGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
EST: gi|100365102|gb|BY966811.1|BY966811
EST:     CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAG                         GGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
genomic: CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAGgtattacatt ... ttggttccagGGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
EST: gi|18352338|gb|BJ184392.1|BJ184392
EST:     CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAG                         GGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
genomic: CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAGgtattacatt ... ttggttccagGGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
EST: gi|100383898|gb|BY987155.1|BY987155
EST:     CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAG                         GGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
genomic: CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAGgtattacatt ... ttggttccagGGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
EST: gi|162179978|gb|FC356049.1|FC356049
EST:     CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAG                         GGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
genomic: CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAGgtattacatt ... ttggttccagGGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
EST: gi|162168515|gb|FC344452.1|FC344452
EST:     CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAG                         GGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
genomic: CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAGgtattacatt ... ttggttccagGGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
EST: gi|100431865|gb|BY978545.1|BY978545
EST:     CTTCAGTACAAGCAGGAATGGCGTTGATTCCTCGGTCTCCTTTCGTTGAG                         GGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
genomic: CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAGgtattacatt ... ttggttccagGGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
EST: gi|67508394|gb|BJ941261.1|BJ941261
EST:     CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAG                         GGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
genomic: CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAGgtattacatt ... ttggttccagGGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
EST: gi|100379495|gb|BY949797.1|BY949797
EST:     CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAG                         GGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
genomic: CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAGgtattacatt ... ttggttccagGGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
EST: gi|100397985|gb|BY954031.1|BY954031
EST:     CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAG                         GGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
genomic: CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAGgtattacatt ... ttggttccagGGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
EST: gi|100398471|gb|BY972624.1|BY972624
EST:     CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAG                         GGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
genomic: CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAGgtattacatt ... ttggttccagGGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
EST: gi|100445108|gb|BY964407.1|BY964407
EST:     CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAG                         GGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
genomic: CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAGgtattacatt ... ttggttccagGGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
EST: gi|100449342|gb|CJ973641.1|CJ973641
EST:     CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAG                         GGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
genomic: CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAGgtattacatt ... ttggttccagGGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
EST: gi|100389059|gb|BY952263.1|BY952263
EST:     CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAG                         GGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG
genomic: CTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAGgtattacatt ... ttggttccagGGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAG

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: 23 (upstream exon), 30 (downstream exon)
Score: 7

TCTTTCTTTCAGGGTTTTAGAGGCTTTTCCAGGGTTTAGGGCCATGGCTACTTCAGTACAAGCAGGAATGGCGTTGATTCCCCGGTCTCCTTTCGTTGAGgtattacatt ... ttggttccagGGATATGGAGTCCCCACTAAGCAGTTCTTGAGGAGCGCGATGGGTAGCGAGCTTCTGGTTGCCTGCAGAGGTGCCAGGACTAGCATGTCTGTAGCACCGG




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