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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTTTCTGCTCCCCTCGCGTCTGCCCCTGCCTTCTCCGGCCTCCGTCGCCTCCCTCTTGCTCCCGCTTCGTCTCCCGCTTTCGGTGTCGTCTTCTCTTTGgtaagcttgaatttggcgtaattccatgtggtggaggtctgtggagtgtcagaatggatgttctattgtggttgaattcattgtggttggattgctttga...

Basic information

species Physcomitrella patens
transcript PP1S61_72V6.1
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|162210912|gb|FC387010.1|FC387010
EST:     TCCCTCTTGCTCCCGCTTCGTCTCCCGCTTTCGGTGTCGTCTTCTCTTTG                         AGTGAGGGGAAGGGGCACAGAGGTGTCGTCACCATGACTGGGGCCGGGAAG
genomic: TCCCTCTTGCTCCCGCTTCGTCTCCCGCTTTCGGTGTCGTCTTCTCTTTGgtaagcttga ... ggtgatgcagAGTGAGGGGAAGGGGCACAGAGGTGTCGTCACCATGACTGGGGCCGGGAAG
EST: gi|162261258|gb|FC437275.1|FC437275
EST:     TCCCTCTTGCTCCCGCTTCGTCTCCCGCTTTCGGTGTCGTCTTCTCTTTG                         AGTGAGGGGAAGGGGCACAGAGGTGTCGTCACCATGACTGGGGCCGGGAAG
genomic: TCCCTCTTGCTCCCGCTTCGTCTCCCGCTTTCGGTGTCGTCTTCTCTTTGgtaagcttga ... ggtgatgcagAGTGAGGGGAAGGGGCACAGAGGTGTCGTCACCATGACTGGGGCCGGGAAG
EST: gi|100448373|gb|CJ972672.1|CJ972672
EST:     TCCCTCTTGCTCCCGCTTCGTCTCCCGCTTTCGGTGTCGTCTTCTCTTTG                         AGTGAGGGGAAGGGGCACAGAGGTGTCGTCACCATGACTGGGGCCGGGAAG
genomic: TCCCTCTTGCTCCCGCTTCGTCTCCCGCTTTCGGTGTCGTCTTCTCTTTGgtaagcttga ... ggtgatgcagAGTGAGGGGAAGGGGCACAGAGGTGTCGTCACCATGACTGGGGCCGGGAAG
EST: gi|100417516|gb|BY975520.1|BY975520
EST:     TCCCTCTTGCTCCCGCTTCGTCTCCCGCTTTCGGTGTCGTCTTCTCTTTG                         AGTGAGGGGAAGGGGCACAGAGGTGTCGTCACCATGACTGGGGCCGGGAAG
genomic: TCCCTCTTGCTCCCGCTTCGTCTCCCGCTTTCGGTGTCGTCTTCTCTTTGgtaagcttga ... ggtgatgcagAGTGAGGGGAAGGGGCACAGAGGTGTCGTCACCATGACTGGGGCCGGGAAG
EST: gi|208352230|gb|DC906319.1|DC906319
EST:     TCCCTCTTGCTCCCGCTTCGTCTCCCGCTTTCGGTGTCGTCTTCTCTTTG                         AGTGAGGGGAAGGGGCACAGAGGTGTCGTCACCATGACTGGGGCCGGGAAG
genomic: TCCCTCTTGCTCCCGCTTCGTCTCCCGCTTTCGGTGTCGTCTTCTCTTTGgtaagcttga ... ggtgatgcagAGTGAGGGGAAGGGGCACAGAGGTGTCGTCACCATGACTGGGGCCGGGAAG
EST: gi|162213220|gb|FC389300.1|FC389300
EST:     TCCCTCTTGCTCCCGCTTCGTCTCCCGCTTTCGGTGTCGTCTTCTCTTTG                         AGTGAGGGGAAGGGGCACAGAGGTGTCGTCACCATGACTGGGGCCGGGAAG
genomic: TCCCTCTTGCTCCCGCTTCGTCTCCCGCTTTCGGTGTCGTCTTCTCTTTGgtaagcttga ... ggtgatgcagAGTGAGGGGAAGGGGCACAGAGGTGTCGTCACCATGACTGGGGCCGGGAAG
EST: gi|162236936|gb|FC412887.1|FC412887
EST:     TCCCTCTTGCTCCCGCTTCGTCTCCCGCTTTCGGTGTCGTCTTCTCTTTG                         AGTGAGGGGAAGGGGCACAGAGGTGTCGTCACCATGACTGGGGCCGGGAAG
genomic: TCCCTCTTGCTCCCGCTTCGTCTCCCGCTTTCGGTGTCGTCTTCTCTTTGgtaagcttga ... ggtgatgcagAGTGAGGGGAAGGGGCACAGAGGTGTCGTCACCATGACTGGGGCCGGGAAG
EST: gi|18360667|gb|BJ192730.1|BJ192730
EST:     TCCCTCTTGCTCCCGCTTCGTCTCCCGCTTTCGGTGTCGTCTTCTCTTTG                         AGTGAGGGGAAGGGGCACAGAGGTGTCGTCACCATGACTGGGGCCGGGAAG
genomic: TCCCTCTTGCTCCCGCTTCGTCTCCCGCTTTCGGTGTCGTCTTCTCTTTGgtaagcttga ... ggtgatgcagAGTGAGGGGAAGGGGCACAGAGGTGTCGTCACCATGACTGGGGCCGGGAAG
EST: gi|162234246|gb|FC409784.1|FC409784
EST:     TCCCTCTTGCTCCCGCTTCGTCTCCCGCTTTCGGTGTCGTCTTCTCTTTG                         AGTGAGGGGAAGGGGCACAGAGGTGTCGTCACCATGACTGGGGCCGGGAAG
genomic: TCCCTCTTGCTCCCGCTTCGTCTCCCGCTTTCGGTGTCGTCTTCTCTTTGgtaagcttga ... ggtgatgcagAGTGAGGGGAAGGGGCACAGAGGTGTCGTCACCATGACTGGGGCCGGGAAG
EST: gi|100452037|gb|CJ975068.1|CJ975068
EST:     TCCCTCTTGCTCCCGCTTCGTCTCCCGCTTTCGGTGTCGTCTTCTCTTTG                         AGTGAGGGGAAGGGGCACAGAGGTGTCGTCACCATGACTGGGGCCGGGAAG
genomic: TCCCTCTTGCTCCCGCTTCGTCTCCCGCTTTCGGTGTCGTCTTCTCTTTGgtaagcttga ... ggtgatgcagAGTGAGGGGAAGGGGCACAGAGGTGTCGTCACCATGACTGGGGCCGGGAAG

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: 30 (upstream exon), 35 (downstream exon)
Score: 13

TTTTTCTGCTCCCCTCGCGTCTGCCCCTGCCTTCTCCGGCCTCCGTCGCCTCCCTCTTGCTCCCGCTTCGTCTCCCGCTTTCGGTGTCGTCTTCTCTTTGgtaagcttga ... ggtgatgcagAGTGAGGGGAAGGGGCACAGAGGTGTCGTCACCATGACTGGGGCCGGGAAGTTTTTCGTTGGCGGGAACTGGAAGTGCAATGGCACAACTGAGTCGATCA




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