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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactagtctaagaccttgaccttcgagctttttgacttaatgttctcggtgttatcgataaatgctcaatattcccataggtaatcacgtagtgtgatgagataagctcacttgagctgatgtattatcatgtgaaatggtgtttcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG

Basic information

species Physcomitrella patens
transcript PP1S98_136V6.2
intron # 4
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|67578663|gb|BJ950830.1|BJ950830
EST:     TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGN                         TGGTTCATTTACCNGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|67578873|gb|BJ951040.1|BJ951040
EST:     TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|162236291|gb|FC411410.1|FC411410
EST:     TTCCCATTATCCCAGATCTGTTCGAAATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|162210330|gb|FC386210.1|FC386210
EST:     TTCCCATTATCCCAGATCTGTTCGAAATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|67574583|gb|BJ947407.1|BJ947407
EST:     TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|67701028|gb|BJ961261.1|BJ961261
EST:     TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|162250085|gb|FC427394.1|FC427394
EST:     TTCCCATTATCCCAGATCTGTTCGAAATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|67571413|gb|BJ944237.1|BJ944237
EST:     TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGA
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGA
EST: gi|162262839|gb|FC438751.1|FC438751
EST:     TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|162269838|gb|FC445888.1|FC445888
EST:     TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|162250084|gb|FC427393.1|FC427393
EST:     TTCCCATTATCCCAGATCTGTTCGAAATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|67700665|gb|BJ960898.1|BJ960898
EST:     TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACCAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGAC-AG
EST: gi|162276312|gb|FC452419.1|FC452419
EST:     TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|67691902|gb|BJ952135.1|BJ952135
EST:     TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|162223989|gb|FC400347.1|FC400347
EST:     TTCCCATTATCCCAGATCTGTTCGAAATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|7583735|gb|AW699641.1|AW699641
EST:     TTCCCATTATCCCAGATCTGTGCGAGATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|162226371|gb|FC403287.1|FC403287
EST:     TTCCCATTATCCCAGATCTGTTCGAAATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|162236290|gb|FC411409.1|FC411409
EST:     TTCCCATTATCCCAGATCTGTTCGAAATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|15728457|gb|BI740797.1|BI740797
EST:     TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|19790227|gb|BQ041763.1|BQ041763
EST:     TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|162261462|gb|FC438298.1|FC438298
EST:     TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|162226370|gb|FC403286.1|FC403286
EST:     TTCCCATTATCCCAGATCTGTTCGAAATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|37847166|gb|BJ605174.1|BJ605174
EST:     TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|67695443|gb|BJ955676.1|BJ955676
EST:     TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|162216551|gb|FC392448.1|FC392448
EST:     TTCCCATTATCCCAGATCTGTTCGAAATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|162246712|gb|FC424694.1|FC424694
EST:     TTCCCATTATCCCAGATCTGTTCGAAATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|162269839|gb|FC445889.1|FC445889
EST:     TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|67694743|gb|BJ954976.1|BJ954976
EST:     TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|162210329|gb|FC386209.1|FC386209
EST:     TTCCCATTATCCCAGATCTGTTCGAAATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
EST: gi|67701356|gb|BJ961589.1|BJ961589
EST:     TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGG                         TGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
genomic: TTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG

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: 302

GCCATTGACAAACTTCCCATTATCCCAGATCTGTTCGAGATCATCGGCATCCTGTTCTCTGGGgtactagtct ... tcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agataagctcacttgagctgatgtattatcatgtgaaatggtgtttcgtgtgcagTGGTTCATTTACCGGTACTTGCTCTTCAAGCCCGACAG
                    atgtattat  TA-rich tract