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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgcttctctccattccctacctcgctttgctctacgattcatgggtttgaggttaaattttgtgggtttgcgtctggatccgcgattttgaggttgtgaaggtttggggttttttctggggtttgagggttcctgtattgaccaatagaggatgtttgggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCCGCCGAGTATGTGGGCGTCAAGATTGAATTCACCGAGATAACGGACTGGT

Basic information

species Physcomitrella patens
transcript PP1S172_22V6.1
intron # 1
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|100443039|gb|BY981665.1|BY981665
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|208376452|gb|DC902749.1|DC902749
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|67717448|gb|BJ967707.1|BJ967707
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|208389492|gb|DC942199.1|DC942199
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|100369785|gb|BY967385.1|BY967385
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|162174625|gb|FC350280.1|FC350280
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|18347384|gb|BJ179430.1|BJ179430
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|18356387|gb|BJ188446.1|BJ188446
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|67718156|gb|BJ968415.1|BJ968415
EST:     CCCCCTCGGCCGCAGCCGCACCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|67704223|gb|BJ964456.1|BJ964456
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|18369160|gb|BJ201245.1|BJ201245
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|100353391|gb|BY964783.1|BY964783
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|67716670|gb|BJ966930.1|BJ966930
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|208390428|gb|DC933685.1|DC933685
EST:     GCATCACCAGCCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAAGCCTTGATTGCC
genomic: GCATCACCAG-CTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|67717265|gb|BJ967524.1|BJ967524
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|100355882|gb|BY946086.1|BY946086
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|67712935|gb|BJ966384.1|BJ966384
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|162229414|gb|FC405605.1|FC405605
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|100383611|gb|BY969140.1|BY969140
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|18366975|gb|BJ199055.1|BJ199055
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|18346613|gb|BJ178658.1|BJ178658
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|18354799|gb|BJ186857.1|BJ186857
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|208367162|gb|DC935962.1|DC935962
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|18341969|gb|BJ174004.1|BJ174004
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|18356942|gb|BJ189001.1|BJ189001
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|67571497|gb|BJ944321.1|BJ944321
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|100363442|gb|BY966391.1|BY966391
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|18372682|gb|BJ204284.1|BJ204284
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|67703235|gb|BJ963468.1|BJ963468
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|67717486|gb|BJ967745.1|BJ967745
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|67569243|gb|BJ942067.1|BJ942067
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|18364140|gb|BJ196213.1|BJ196213
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|100415505|gb|BY992875.1|BY992875
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|100360303|gb|BY966108.1|BY966108
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
EST: gi|100427995|gb|BY959230.1|BY959230
EST:     CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTG                         AAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC
genomic: CCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCC

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), 29 (downstream exon)
Score: 21

AGCTCCACGCCCACTACGTTGCCCTCCCTCCTGCAGCTCCGTTCCTTCGTCCCCCTCGGCCGCAGCCGCATCACCAGCTGCAGCAGCCATGGCTGGATTGgtgcgcttct ... gggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCCGCCGAGTATGTGGGCGTCAAGATTGAATTCACCGAGATAACGGACTGGT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctggggtttgagggttcctgtattgaccaatagaggatgtttgggtgagcagAAGCTTTACGCCAACCCGGTGAACAAAAATGCGTACAAGGCCTTGATTGCCGCCGAGTATGTGGGCGTCAAGATTGAATTCACCGAGATAACGGACTGGT
                       tattgac  putative branch site (score: 21)