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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCCACAGACACGAGTTCAAGCGCGAGATAAATCTCGTACACCCCCTGATGCAGTTACTTTTAGGCCTAGAAAGCTTTGCAGAGTCCAGCACCCTTCTTGgttagaacctccatctccgtcaggattgcgattcctgttctggtgtgcattgggtgtgggcagctacaatataaaaagtactaagtaatgaacttttcattttgtgttgtaactttgcaagttcaaatttgtgtacttgtttgcattaatgcagaaaatgtttcgttctgttgtag

Basic information

species Physcomitrella patens
transcript PP1S79_272V6.1
intron # 3
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|208346986|gb|DC909312.1|DC909312
EST:     GCAGTTACTTTTAGGCCTAGAAAGCTTTGCAGAGTCCAGCACCCTTCTTG                         TTCTGGCAGTTTCCTGAGTTCACGACGTGGAGGTTTGATCCGGTTTCAAAG
genomic: GCAGTTACTTTTAGGCCTAGAAAGCTTTGCAGAGTCCAGCACCCTTCTTGgttagaacct ... tctgttgtagTTCTGGCAGTTTCCTGAGTTCACGACGTGGAGGTTTGATCCGGTTTCAAAG
EST: gi|18360270|gb|BJ192332.1|BJ192332
EST:     GCAGTTACTTTTAGGCCTAGAAAGCTTTGCAGAGTCCAGCACCCTTCTTG                         TTCTGGCAGTTTCCTGAGTTCACGACGTGGAGGTTTGATCCGGTTTCAAAG
genomic: GCAGTTACTTTTAGGCCTAGAAAGCTTTGCAGAGTCCAGCACCCTTCTTGgttagaacct ... tctgttgtagTTCTGGCAGTTTCCTGAGTTCACGACGTGGAGGTTTGATCCGGTTTCAAAG
EST: gi|162219590|gb|FC395586.1|FC395586
EST:     GCAGTTACTTTTAGGCCTAGAAAGCTTTGCAGAGTCCAGCACCCTTCTTG                         TTCTGGCAGTTTCCTGAGTTCACCACGTGGAGGTTTGATCCGGTTTCAAAG
genomic: GCAGTTACTTTTAGGCCTAGAAAGCTTTGCAGAGTCCAGCACCCTTCTTGgttagaacct ... tctgttgtagTTCTGGCAGTTTCCTGAGTTCACGACGTGGAGGTTTGATCCGGTTTCAAAG
EST: gi|100444565|gb|BY964263.1|BY964263
EST:     GCAGTTACTTTTAGGCCTAGAAAGCTTTGCAGAGTCCAGCACCCTTCTTG                         TTCTGGCAGTTTCCTGAGTTCACGACGTGGAGGTTTGATCCGGTTTCAAAG
genomic: GCAGTTACTTTTAGGCCTAGAAAGCTTTGCAGAGTCCAGCACCCTTCTTGgttagaacct ... tctgttgtagTTCTGGCAGTTTCCTGAGTTCACGACGTGGAGGTTTGATCCGGTTTCAAAG
EST: gi|208385187|gb|DC911405.1|DC911405
EST:     GCAGTTACTTTTAGGCCTAGAAAGCTTTGCAGAGTCCAGCACCCTTCTTG                         TTCTGGCAGTTTCCTGAGTTCACGACGTGGAGGTTTGATCCGGTTTCAAAG
genomic: GCAGTTACTTTTAGGCCTAGAAAGCTTTGCAGAGTCCAGCACCCTTCTTGgttagaacct ... tctgttgtagTTCTGGCAGTTTCCTGAGTTCACGACGTGGAGGTTTGATCCGGTTTCAAAG
EST: gi|100384315|gb|BY969446.1|BY969446
EST:     GCAGTTACTTTTAGGCCTAGAAAGCTTTGCAGAGTCCAGCACCCTTCTTG                         TTCTGGCAGTTTCCTGAGTTCACGACGTGGAGGTTTGATCCGGTTTCAAAG
genomic: GCAGTTACTTTTAGGCCTAGAAAGCTTTGCAGAGTCCAGCACCCTTCTTGgttagaacct ... tctgttgtagTTCTGGCAGTTTCCTGAGTTCACGACGTGGAGGTTTGATCCGGTTTCAAAG

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: 22 (upstream exon), 28 (downstream exon)
Score: 2

CTCCACAGACACGAGTTCAAGCGCGAGATAAATCTCGTACACCCCCTGATGCAGTTACTTTTAGGCCTAGAAAGCTTTGCAGAGTCCAGCACCCTTCTTGgttagaacct ... tctgttgtagTTCTGGCAGTTTCCTGAGTTCACGACGTGGAGGTTTGATCCGGTTTCAAAGACCACATGCCCTATCATTGCAGATGATCACTGCTGACCACGAAAATAGT




<











<


<