Skip to another splice site:
1  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCAACTGCTTGAAGGAGCCGTTCAAGTCCAAGGCGCTCCAGCGGGAGCATGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgcttgctgtcctcgtggtttgtttagaaaattgggaaccgttttgtcgaatgtgaagtactaaatcttgcgttgggtttctaccatgtag

Basic information

species Physcomitrella patens
transcript PP1S398_22V6.1
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|18357103|gb|BJ189162.1|BJ189162
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|162247776|gb|FC423395.1|FC423395
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|18361528|gb|BJ193594.1|BJ193594
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|18364812|gb|BJ196885.1|BJ196885
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|162253209|gb|FC429145.1|FC429145
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|19790305|gb|BQ041794.1|BQ041794
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|162211705|gb|FC387993.1|FC387993
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|162216561|gb|FC392458.1|FC392458
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|162248330|gb|FC420894.1|FC420894
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|208352694|gb|DC921428.1|DC921428
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|37848332|gb|BJ606340.1|BJ606340
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|37836472|gb|BJ594480.1|BJ594480
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|162233994|gb|FC410507.1|FC410507
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|19790042|gb|BQ041664.1|BQ041664
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|162253210|gb|FC429146.1|FC429146
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|7583854|gb|AW699757.1|AW699757
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|18367789|gb|BJ199872.1|BJ199872
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|162202389|gb|FC378682.1|FC378682
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|162202388|gb|FC378681.1|FC378681
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|162233995|gb|FC410508.1|FC410508
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|37839237|gb|BJ597245.1|BJ597245
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|67724776|gb|BJ975035.1|BJ975035
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|67716258|gb|BJ966518.1|BJ966518
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|162228662|gb|FC405482.1|FC405482
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|162217191|gb|FC392555.1|FC392555
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|208383365|gb|DC907540.1|DC907540
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|37842008|gb|BJ600016.1|BJ600016
EST:     TGCGTACTACAAATTCCAGCCNTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|162218613|gb|FC394579.1|FC394579
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
EST: gi|7648079|gb|AW739062.1|AW739062
EST:     TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAG                         TGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG
genomic: TGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGG

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: 29 (upstream exon), 33 (downstream exon)
Score: 13

CGCAACTGCTTGAAGGAGCCGTTCAAGTCCAAGGCGCTCCAGCGGGAGCATGCGTACTACAAATTCCAGCCCTACGCAGAAGGCGCTCCACAGAAAGCAGgtttgttgct ... taccatgtagTGGTGCGAGAGACTGGCGCGCCGTCTACGAGTTAGGAAGGAGCGGGAGTGGGTGAATTTCTTTGACATCTAGATTTCGTGTCCAATCTCCTCGCAGAGTT




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