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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAACTTCTTGGAGCGACGGCTGCAGACCATCGTTTTCAAGTCTGGCATGGCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttacgatttttagatgttgatttttggttgattgaacagtcggtgcttaggcacagttgtctcaagttagggtttgaggtaaggaatgatcttt...

Basic information

species Physcomitrella patens
transcript PP1S223_95V6.1
intron # 2
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|67574300|gb|BJ947124.1|BJ947124
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
EST: gi|7584075|gb|AW699973.1|AW699973
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
EST: gi|67697711|gb|BJ957944.1|BJ957944
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
EST: gi|37823191|gb|BJ581257.1|BJ581257
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
EST: gi|18364215|gb|BJ196288.1|BJ196288
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
EST: gi|37841305|gb|BJ599313.1|BJ599313
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
EST: gi|18349649|gb|BJ181699.1|BJ181699
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
EST: gi|162264964|gb|FC441467.1|FC441467
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
EST: gi|67724298|gb|BJ974557.1|BJ974557
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
EST: gi|162272878|gb|FC448021.1|FC448021
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
EST: gi|67712588|gb|BJ966037.1|BJ966037
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
EST: gi|18373816|gb|BJ205394.1|BJ205394
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
EST: gi|162226468|gb|FC402435.1|FC402435
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTCGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
EST: gi|37831021|gb|BJ589033.1|BJ589033
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
EST: gi|67695897|gb|BJ956130.1|BJ956130
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
EST: gi|208379745|gb|DC907630.1|DC907630
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
EST: gi|37844303|gb|BJ602311.1|BJ602311
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
EST: gi|162226467|gb|FC402434.1|FC402434
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTCGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
EST: gi|162264963|gb|FC441466.1|FC441466
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
EST: gi|37828611|gb|BJ586623.1|BJ586623
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
EST: gi|18344000|gb|BJ176039.1|BJ176039
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
EST: gi|162263090|gb|FC439353.1|FC439353
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
EST: gi|67572524|gb|BJ945348.1|BJ945348
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
EST: gi|208349758|gb|DC921522.1|DC921522
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
EST: gi|162259505|gb|FC435016.1|FC435016
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
EST: gi|162260365|gb|FC435017.1|FC435017
EST:     GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAG                         GGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG
genomic: GCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAG

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: 35 (upstream exon), 34 (downstream exon)
Score: 60

AGAACTTCTTGGAGCGACGGCTGCAGACCATCGTTTTCAAGTCTGGCATGGCGAAGTCTATTCATCATGCTCGAGTTTTGATCAAGCAGCGTCACATCAGgttggtttac ... cgttattcagGGTTGGGAAGCAGATCGTCGATGTGCCATCATTTATGGTTCGTGTTGACAGCCAAAAGCACGTTGATTTCGCCCTATCGAGTCCACTTGGTGGAGGTAGG




<











<


<