Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGAATTGGAAGTTCAGGAGAAGTTGTCGCTCCTGGAGTGGTTCGCAAATGAGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAGgtgcgtgcacttgtcaagagtagacctacttcctcggtgttcgtaagatgttgcaaatgcttgctatgtcaaggacgtagtatctttttttgaacgtgtctttttatttcagataatcatggatcagttgtctttgtattcgattgaagtgttgaatttttgtttatgttcgtggttttcag

Basic information

species Physcomitrella patens
transcript PP1S90_83V6.2
intron # 5
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|37849529|gb|BJ607537.1|BJ607537
EST:     AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAG                         GAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
genomic: AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAGgtgcgtgcac ... tggttttcagGAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
EST: gi|162151737|gb|FC328594.1|FC328594
EST:     AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAG                         GAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
genomic: AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAGgtgcgtgcac ... tggttttcagGAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
EST: gi|162177195|gb|FC352624.1|FC352624
EST:     AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAG                         GAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
genomic: AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAGgtgcgtgcac ... tggttttcagGAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
EST: gi|208355081|gb|DC922197.1|DC922197
EST:     AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAG                         GAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
genomic: AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAGgtgcgtgcac ... tggttttcagGAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
EST: gi|37846836|gb|BJ604844.1|BJ604844
EST:     AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAG                         GAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
genomic: AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAGgtgcgtgcac ... tggttttcagGAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
EST: gi|37842133|gb|BJ600141.1|BJ600141
EST:     AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAG                         GAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
genomic: AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAGgtgcgtgcac ... tggttttcagGAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
EST: gi|67721373|gb|BJ971632.1|BJ971632
EST:     AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAG                         GAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
genomic: AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAGgtgcgtgcac ... tggttttcagGAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
EST: gi|37849553|gb|BJ607561.1|BJ607561
EST:     AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAG                         GAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
genomic: AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAGgtgcgtgcac ... tggttttcagGAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
EST: gi|37822279|gb|BJ580345.1|BJ580345
EST:     AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAG                         GAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
genomic: AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAGgtgcgtgcac ... tggttttcagGAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
EST: gi|162186114|gb|FC361318.1|FC361318
EST:     AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAG                         GAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
genomic: AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAGgtgcgtgcac ... tggttttcagGAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
EST: gi|37839909|gb|BJ597917.1|BJ597917
EST:     AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAG                         GAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
genomic: AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAGgtgcgtgcac ... tggttttcagGAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
EST: gi|37834574|gb|BJ592586.1|BJ592586
EST:     AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAG                         GAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
genomic: AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAGgtgcgtgcac ... tggttttcagGAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
EST: gi|162177196|gb|FC352625.1|FC352625
EST:     AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAG                         GAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
genomic: AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAGgtgcgtgcac ... tggttttcagGAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
EST: gi|37840093|gb|BJ598101.1|BJ598101
EST:     AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAG                         GAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
genomic: AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAGgtgcgtgcac ... tggttttcagGAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
EST: gi|37841281|gb|BJ599289.1|BJ599289
EST:     AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAG                         GAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
genomic: AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAGgtgcgtgcac ... tggttttcagGAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
EST: gi|67724967|gb|BJ975226.1|BJ975226
EST:     AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAG                         GAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC
genomic: AGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAGgtgcgtgcac ... tggttttcagGAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGC

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: 18 (upstream exon), 35 (downstream exon)
Score: 3

CGAATTGGAAGTTCAGGAGAAGTTGTCGCTCCTGGAGTGGTTCGCAAATGAGTACAAGCGGTTTGGATGTACGTTAGAATTTGTTACGAACAAGTCACAGgtgcgtgcac ... tggttttcagGAAGGATCACAGTTTTGTCGTGGTTTTGGTGGAATTGGAGGAATCTTGCGCTATCAGCTCGATATGCGCACATTCGATGAGCTTTCAGACGGAGAATATG




<











<


<