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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgattgaaacttctctacttggttccagttagttgctcacaacgcacgctttgccgcagATGTGCATGGCCGGTTTCCTTCCTTTCAGCGCCATCTATATCGAGTTGTACTATATCTTCGCCAGTGTCTGGGGGCACAAGATCTATACAATTTACAGCA

Basic information

species Selaginella moellendorffii
transcript EFJ35228
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ35228 (Selaginella moellendorffii), 3'ss of exon 7
lower sequence: PP1S373_13V6.1 (Physcomitrella patens), 3'ss of exon 7
----------------------------------------gtgattgaaacttctctacttggttccagttagttgctcacaacgcacgctttgccgcagATGTGCATGGCCGGTTTCCTTCCTTTCAGCGCCATCTATATCGAGTTGTACTATATCTTCGCCAGTGTCTGGGGGCACAAGATCTATACAATTTACAGCA
                                           |   ||   |    |  |||  |   | ||||  |     |    | || |  ||||||||||||||| |||||||| || ||||| || ||||| |||||| | || || || || ||||| || ||||| ||||| || ||||| || |||||||
tctgatgtgacagaatgccacatactacacgacgaagtggaaaaccaaataatgaacaagtgggacgtttaagttcattggttcttctgtttgggtgcagATGTGCATGGCAGGTTTCCTGCCGTTCAGTGCAATCTACATCGAGCTCTATTACATTTTTGCCAGCGTTTGGGGTCACAAAATTTATACCATCTACAGCA
















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|169114445|gb|FE517137.1|FE517137
EST:     TCCCGAGAGAGATTCCTGCGCTTCCGTGGTATCGGAAAACCATCCCTCAG                         ATGTGCATGGCCGGTTTCCTTCCTTTCAGCGCCATCTATATCGAGCTGTAC
genomic: TCCCGAGAGAGATTCCTGCGCTTCCGTGGTATCGGAAAACCATCCCTCAGgtgattgaaa ... tttgccgcagATGTGCATGGCCGGTTTCCTTCCTTTCAGCGCCATCTATATCGAGTTGTAC
EST: gi|169102228|gb|FE507037.1|FE507037
EST:     TCCCGAGAGAGATTCCTGCGCTTCCGTGGTATCGGAAAACCATCCCTCAG                         ATGTGCATGGCCGGTTTCCTTCCTTTCAGCGCCATCTATATCGAGCTGTAC
genomic: TCCCGAGAGAGATTCCTGCGCTTCCGTGGTATCGGAAAACCATCCCTCAGgtgattgaaa ... tttgccgcagATGTGCATGGCCGGTTTCCTTCCTTTCAGCGCCATCTATATCGAGTTGTAC
EST: gi|169057180|gb|FE464691.1|FE464691
EST:     TCCCGAGAGAGATTCCTGCGCTTCCGTGGTATCGGAAAACCATCCCTCAG                         ATGTGCATGGCCGGTTTCCTTCCTTTCAGCGCCATCTATATCGAGCTGTAC
genomic: TCCCGAGAGAGATTCCTGCGCTTCCGTGGTATCGGAAAACCATCCCTCAGgtgattgaaa ... tttgccgcagATGTGCATGGCCGGTTTCCTTCCTTTCAGCGCCATCTATATCGAGTTGTAC
EST: gi|169115630|gb|FE517840.1|FE517840
EST:     TCCCGAGAGAGATTCCTGCGCTTCCGTGGTATCGGAAAACCATCCCTCAG                         ATGTGCATGGCCGGTTTCCTTCCTTTCAGCGCCATCTATATCGAGTTGTAC
genomic: TCCCGAGAGAGATTCCTGCGCTTCCGTGGTATCGGAAAACCATCCCTCAGgtgattgaaa ... tttgccgcagATGTGCATGGCCGGTTTCCTTCCTTTCAGCGCCATCTATATCGAGTTGTAC
EST: gi|169095825|gb|FE498906.1|FE498906
EST:     TCCCGAGAGAGATTCCTGCGCTTCCGTGGTATCGGAAAACCATCCCTCAG                         ATGTGCATGGCCGGTTTCCTTCCTTTCAGCGCCATCTATATCGAGTTGTAC
genomic: TCCCGAGAGAGATTCCTGCGCTTCCGTGGTATCGGAAAACCATCCCTCAGgtgattgaaa ... tttgccgcagATGTGCATGGCCGGTTTCCTTCCTTTCAGCGCCATCTATATCGAGTTGTAC
EST: gi|169023366|gb|FE430042.1|FE430042
EST:     TCCCGAGAGAGATTCCTGCGCTTCCGTGGTATCGGAAAACCATCCCTCAG                         ATGTGCATGGCCGGTTTCCTTCCTTTCAGCGCCATCTATATCGAGTTGTAC
genomic: TCCCGAGAGAGATTCCTGCGCTTCCGTGGTATCGGAAAACCATCCCTCAGgtgattgaaa ... tttgccgcagATGTGCATGGCCGGTTTCCTTCCTTTCAGCGCCATCTATATCGAGTTGTAC
EST: gi|169111316|gb|FE510891.1|FE510891
EST:     TCCCGAGAGAGATTCCTGCGCTTCCGTGGTATCGGAAAACCATCCCTCAG                         ATGTGCATGGCCGGTTTCCTTCCTTTCAGCGCCATCTATATCGAGTTGTAC
genomic: TCCCGAGAGAGATTCCTGCGCTTCCGTGGTATCGGAAAACCATCCCTCAGgtgattgaaa ... tttgccgcagATGTGCATGGCCGGTTTCCTTCCTTTCAGCGCCATCTATATCGAGTTGTAC
EST: gi|169024462|gb|FE434387.1|FE434387
EST:     TCCCGAGAGAGATTCCTGCGCTTCCGTGGTATCGGAAAACCATCCCTCAG                         ATGTGCATGGCCGGTTTCCTTCCTTTCAGCGCCATCTATATCGAGCTGTAC
genomic: TCCCGAGAGAGATTCCTGCGCTTCCGTGGTATCGGAAAACCATCCCTCAGgtgattgaaa ... tttgccgcagATGTGCATGGCCGGTTTCCTTCCTTTCAGCGCCATCTATATCGAGTTGTAC
EST: gi|169111317|gb|FE510892.1|FE510892
EST:     TCCCGAGAGAGATTCCTGCGCTTCCGTGGTATCGGAAAACCATCCCTCAG                         ATGTGCATGGCCGGTTTCCTTCCTTTCAGCGCCATCTATATCGAGTTGTAC
genomic: TCCCGAGAGAGATTCCTGCGCTTCCGTGGTATCGGAAAACCATCCCTCAGgtgattgaaa ... tttgccgcagATGTGCATGGCCGGTTTCCTTCCTTTCAGCGCCATCTATATCGAGTTGTAC

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: 29

TGGCAAGAACAACAAGAATGAATTTTACGCACCTTGCAGGACCAAAAAGTTCCCGAGAGAGATTCCTGCGCTTCCGTGGTATCGGAAAACCATCCCTCAGgtgattgaaa ... tttgccgcagATGTGCATGGCCGGTTTCCTTCCTTTCAGCGCCATCTATATCGAGTTGTACTATATCTTCGCCAGTGTCTGGGGGCACAAGATCTATACAATTTACAGCA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaaacttctctacttggttccagttagttgctcacaacgcacgctttgccgcagATGTGCATGGCCGGTTTCCTTCCTTTCAGCGCCATCTATATCGAGTTGTACTATATCTTCGCCAGTGTCTGGGGGCACAAGATCTATACAATTTACAGCA
                             tgctcac  putative branch site (score: 29)
                                            ctttgcc  putative PPT