Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGGGCGCTTGCGATCATCGGCTGAGACCATGAATGTTTTCAATAGTTTGAACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgtttgtttgtttgtctgtttgtgtgtgtgtgtgtgtgtgttttgcgtggtttttgattgtgactttagagcggtgtgtggtgtgtaggcggt...

Basic information

species Physcomitrella patens
transcript PP1S17_286V6.1
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|100371244|gb|BY986009.1|BY986009
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGGGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|100370198|gb|BY985291.1|BY985291
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|100370539|gb|BY985459.1|BY985459
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|162157033|gb|FC333395.1|FC333395
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|100386555|gb|BY951351.1|BY951351
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAAAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|100433927|gb|BY978890.1|BY978890
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|100410253|gb|BY974485.1|BY974485
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|208378728|gb|DC914702.1|DC914702
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|100443910|gb|BY982138.1|BY982138
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|100407865|gb|BY955817.1|BY955817
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|18326747|gb|BJ158746.1|BJ158746
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|162243725|gb|FC421846.1|FC421846
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|100404600|gb|BY973659.1|BY973659
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|100447095|gb|CJ971394.1|CJ971394
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|100447779|gb|CJ972078.1|CJ972078
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|18355150|gb|BJ187209.1|BJ187209
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|100448765|gb|CJ973064.1|CJ973064
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|100390401|gb|BY952809.1|BY952809
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|100426769|gb|BY977353.1|BY977353
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|100401328|gb|BY990947.1|BY990947
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|100356349|gb|BY946320.1|BY946320
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|100360286|gb|BY966100.1|BY966100
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|18363703|gb|BJ195775.1|BJ195775
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTANCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|100446094|gb|CJ970393.1|CJ970393
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|100447201|gb|CJ971500.1|CJ971500
EST:     AACCCCTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|100387473|gb|BY988344.1|BY988344
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|208384897|gb|DC907510.1|DC907510
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|208393420|gb|DC942504.1|DC942504
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
EST: gi|100367904|gb|BY984806.1|BY984806
EST:     AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAG                         TGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC
genomic: AACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGC

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

AGGGGCGCTTGCGATCATCGGCTGAGACCATGAATGTTTTCAATAGTTTGAACCCTTTGCACCGGGAGGGAGGTGTGCCTGTCAGCGGAGGCGGTCAAAGgtttgtttgt ... tcatgtgcagTGAAGATAAAAAGGTTAGCTATGGCTTTTCAAGTTTGCGTGGAAAGAGAGCCTCAATGGAGGATTTCCTTGATGCCCAGATATCACAGGTTGACGGTGTG




<











<


<