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'   		8  
 5'  3'   		9  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCGGTAGTCTTATTAGTCTCACTTCGAAGAGTGAGATCCGGTACGAGGGGATTCTGTATACTGTGGACACTGAGAATTCCAACATAGCGCTGCAAAACGgtgtggtttggggctcctcacttttctttgctgttgttgttgttgttgttaggtaggtggagaagggtgttgatttgttgttgcgacgattttaggattt...

Basic information

species Physcomitrella patens
transcript PP1S35_195V6.1
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|100439379|gb|BY980234.1|BY980234
EST:     GATTCTGTATACTGTGGACACTGAGAATTCCAACATAGCGCTGCAAAACG                         TGAGATCATTCGGAACAGAGGGGCGTAAGAAGGATGGCCCCCAGATCCCTG
genomic: GATTCTGTATACTGTGGACACTGAGAATTCCAACATAGCGCTGCAAAACGgtgtggtttg ... ttttatgcagTGAGATCATTCGGAACAGAGGGGCGTAAGAAGGATGGCCCCCAGATCCCTG
EST: gi|18356367|gb|BJ188426.1|BJ188426
EST:     GATTCTGTATACTGTGGACACTGAGAATTCCAACATAGCGCTGCAAAACG                         TGAGATCATTCGGAACAGAGGGGCGTAAGAAGGATGGCCCCCAGATCCCTG
genomic: GATTCTGTATACTGTGGACACTGAGAATTCCAACATAGCGCTGCAAAACGgtgtggtttg ... ttttatgcagTGAGATCATTCGGAACAGAGGGGCGTAAGAAGGATGGCCCCCAGATCCCTG
EST: gi|18354898|gb|BJ186957.1|BJ186957
EST:     GATTCTGTATACTGTGGACACTGAGAATTCCAACATAGCGCTGCAAAACG                         TGAGATCATTCGGAACAGAGGGGCGTAAGAAGGATGGCCCCCAGATCCCTG
genomic: GATTCTGTATACTGTGGACACTGAGAATTCCAACATAGCGCTGCAAAACGgtgtggtttg ... ttttatgcagTGAGATCATTCGGAACAGAGGGGCGTAAGAAGGATGGCCCCCAGATCCCTG
EST: gi|67508092|gb|BJ940963.1|BJ940963
EST:     GATTCTGTATACTGTGGACACTGAGAATTCCAACATAGCGCTGCAAAACG                         TGAGATCATTCGGAACAGAGGGGCGTAAGAAGGATGGCCCCCAGATCCCTG
genomic: GATTCTGTATACTGTGGACACTGAGAATTCCAACATAGCGCTGCAAAACGgtgtggtttg ... ttttatgcagTGAGATCATTCGGAACAGAGGGGCGTAAGAAGGATGGCCCCCAGATCCCTG
EST: gi|67717865|gb|BJ968124.1|BJ968124
EST:     GATTCTGTATACTGTGGACACTGAGAATTCCAACATAGCGCTGCAAAACG                         TGAGATCATTCGGAACAGAGGGGCGTAAGAAGGATGGCCCCCAGATCCCTG
genomic: GATTCTGTATACTGTGGACACTGAGAATTCCAACATAGCGCTGCAAAACGgtgtggtttg ... ttttatgcagTGAGATCATTCGGAACAGAGGGGCGTAAGAAGGATGGCCCCCAGATCCCTG
EST: gi|18355005|gb|BJ187064.1|BJ187064
EST:     GATTCTGTATACTGTGGACACTGAGAATTCCAACATAGCGCTGCAAAACG                         TGAGATCATTCGGAACAGAGGGGCGTAAGAAGGATGGCCCCCAGATCCCTG
genomic: GATTCTGTATACTGTGGACACTGAGAATTCCAACATAGCGCTGCAAAACGgtgtggtttg ... ttttatgcagTGAGATCATTCGGAACAGAGGGGCGTAAGAAGGATGGCCCCCAGATCCCTG
EST: gi|18332319|gb|BJ164332.1|BJ164332
EST:     GATTCTGTATACTGTGGACACTGAGAATTCCAACATAGCGCTGCAAAACG                         TGAGATCATTCGGAACAGAGGGGCGTAAGAAGGATGGCCCCCAGATCCCTG
genomic: GATTCTGTATACTGTGGACACTGAGAATTCCAACATAGCGCTGCAAAACGgtgtggtttg ... ttttatgcagTGAGATCATTCGGAACAGAGGGGCGTAAGAAGGATGGCCCCCAGATCCCTG

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), 28 (downstream exon)
Score: 6

ATCGGTAGTCTTATTAGTCTCACTTCGAAGAGTGAGATCCGGTACGAGGGGATTCTGTATACTGTGGACACTGAGAATTCCAACATAGCGCTGCAAAACGgtgtggtttg ... ttttatgcagTGAGATCATTCGGAACAGAGGGGCGTAAGAAGGATGGCCCCCAGATCCCTGCTAGCGACAAAGTTTATGATTATATCATTTTCCGAGGATCGGATATCAA




<











<


<