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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCTCTTTCAAGCGTGCGTCTGGTTGGGTCGAGAGACGCGCTCTGGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgatcacttgcccatctcattctgtattcagttgcggttaatgagtccctagacggtagcgtgtttgtttcttgtagggtttggggcatcgagc...

Basic information

species Physcomitrella patens
transcript PP1S74_193V6.2
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|162253736|gb|FC429850.1|FC429850
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|37835110|gb|BJ593122.1|BJ593122
EST:     GCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162200202|gb|FC376074.1|FC376074
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162275357|gb|FC451541.1|FC451541
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|67727870|gb|BJ978129.1|BJ978129
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|37828224|gb|BJ586236.1|BJ586236
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162232758|gb|FC408165.1|FC408165
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162236236|gb|FC412005.1|FC412005
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162259564|gb|FC435491.1|FC435491
EST:     TCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: TCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162209172|gb|FC385391.1|FC385391
EST:     TCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: TCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162259565|gb|FC435492.1|FC435492
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|37843558|gb|BJ601566.1|BJ601566
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162271402|gb|FC446975.1|FC446975
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162212767|gb|FC388567.1|FC388567
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|18349284|gb|BJ181333.1|BJ181333
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|22132063|gb|BQ826960.1|BQ826960
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162238997|gb|FC418463.1|FC418463
EST:     AGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: AGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|67719603|gb|BJ969862.1|BJ969862
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162213098|gb|FC389522.1|FC389522
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162200201|gb|FC376073.1|FC376073
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|67727046|gb|BJ977305.1|BJ977305
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162277946|gb|FC454077.1|FC454077
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162253737|gb|FC429851.1|FC429851
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG

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: 54

CTCTCTTTCAAGCGTGCGTCTGGTTGGGTCGAGAGACGCGCTCTGGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAGACACCTAAGGCTTACCGCATGAAGCTCTGGGCCACCAACGAAGTGCGCG




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