Skip to another splice site:
1  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCAGAAGCCCCGACGATCTCAGTGACGCTTCTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAGgtaactcatgcgagtctctcttctttattcacctgcctgactatattggattaagcctttgtataattttcttcaggttctgcgtttattttccagcggg...

Basic information

species Physcomitrella patens
transcript PP1S77_254V6.1
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|67569973|gb|BJ942797.1|BJ942797
EST:     CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAG                         TGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
genomic: CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAGgtaactcatg ... ttctgtgcagTGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
EST: gi|37826681|gb|BJ584693.1|BJ584693
EST:     CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAG                         TGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
genomic: CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAGgtaactcatg ... ttctgtgcagTGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
EST: gi|67571227|gb|BJ944051.1|BJ944051
EST:     CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAG                         TGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
genomic: CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAGgtaactcatg ... ttctgtgcagTGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
EST: gi|67694543|gb|BJ954776.1|BJ954776
EST:     CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAG                         TGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
genomic: CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAGgtaactcatg ... ttctgtgcagTGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
EST: gi|7583233|gb|AW699397.1|AW699397
EST:     ATGAGGGCTAAG                         TGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
genomic: ATGAGGGCTAAGgtaactcatg ... ttctgtgcagTGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
EST: gi|18363247|gb|BJ195319.1|BJ195319
EST:     CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAG                         TGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
genomic: CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAGgtaactcatg ... ttctgtgcagTGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
EST: gi|67696958|gb|BJ957191.1|BJ957191
EST:     CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAG                         TGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
genomic: CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAGgtaactcatg ... ttctgtgcagTGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
EST: gi|37837046|gb|BJ595054.1|BJ595054
EST:     CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAG                         TGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
genomic: CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAGgtaactcatg ... ttctgtgcagTGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
EST: gi|162242916|gb|FC415320.1|FC415320
EST:     CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAG                         TGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
genomic: CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAGgtaactcatg ... ttctgtgcagTGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
EST: gi|37840462|gb|BJ598470.1|BJ598470
EST:     CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAG                         TGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
genomic: CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAGgtaactcatg ... ttctgtgcagTGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
EST: gi|162259930|gb|FC435233.1|FC435233
EST:     CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAG                         TGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
genomic: CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAGgtaactcatg ... ttctgtgcagTGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
EST: gi|18347477|gb|BJ179523.1|BJ179523
EST:     CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAG                         TGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
genomic: CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAGgtaactcatg ... ttctgtgcagTGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
EST: gi|162259929|gb|FC435232.1|FC435232
EST:     TTCGTGAATCATGAGGGCTAAG                         TGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
genomic: TTCGTGAATCATGAGGGCTAAGgtaactcatg ... ttctgtgcagTGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
EST: gi|67573572|gb|BJ946396.1|BJ946396
EST:     CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAG                         TGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
genomic: CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAGgtaactcatg ... ttctgtgcagTGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
EST: gi|15730057|gb|BI741642.1|BI741642
EST:     TGAGGGCTAAG                         TGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
genomic: TGAGGGCTAAGgtaactcatg ... ttctgtgcagTGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
EST: gi|15327083|gb|BI487559.1|BI487559
EST:     CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAG                         TGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
genomic: CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAGgtaactcatg ... ttctgtgcagTGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
EST: gi|67693243|gb|BJ953476.1|BJ953476
EST:     CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAG                         TGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA
genomic: CTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAGgtaactcatg ... ttctgtgcagTGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGA

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: 28 (upstream exon), 35 (downstream exon)
Score: 15

TCAGAAGCCCCGACGATCTCAGTGACGCTTCTCTCCTGCGGCTGCATTGCAAGGCGTCTTCGTGAATCATGAGGGCTAAGgtaactcatg ... ttctgtgcagTGGAAGAAAAAACGCATGAGGCGCTTGAAGCGTAAGCGTCGAAAGATGAGACAACGATCCAAGTAGGTGCTTGGTAGTTAGGTTTCTGCCCAGTAGGGAG




<











<


<