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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatacagagtcagtgattgatcataactcatgtcacgtacgtgcatgcatggctatggcggcaatggttgacgggaaaaccagGTGCGGACAGTCATCGGCGATGAAGGCCTGGCCATTGTGGGCGAGTGCTGCAAGGATCTTCGCAAGGCCCGGATCGAGGACCACAACGACGAGGGGACCT

Basic information

species Selaginella moellendorffii
transcript EFJ14966
intron # 2
splice site 3'
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|169072391|gb|FE479445.1|FE479445
EST:     AACAGCACCACGCCCTCCTCCGCTGCTGTACCAGGCTCCAAAACCTTCAG                         GTGCGGACAGTCATCGGCGATGAAGGCCTGGCCATTGTGGGCGAGTGCTGC
genomic: AACAGCACCACGCCCTCCTCCGCTGCTGTACCAGGCTCCAAAACCTTCAGgtatacagag ... ggaaaaccagGTGCGGACAGTCATCGGCGATGAAGGCCTGGCCATTGTGGGCGAGTGCTGC
EST: gi|169032027|gb|FE437932.1|FE437932
EST:     AACAGCACCACGCCCTCCTCCGCTGCTGTACCAGGCTCCAAAACCTTCAG                         GTGCGGACAGTCATCGGCGATGAAGGCCTGGCCATTGTGGGCGAGTGCTGC
genomic: AACAGCACCACGCCCTCCTCCGCTGCTGTACCAGGCTCCAAAACCTTCAGgtatacagag ... ggaaaaccagGTGCGGACAGTCATCGGCGATGAAGGCCTGGCCATTGTGGGCGAGTGCTGC
EST: gi|169110804|gb|FE513161.1|FE513161
EST:     AACAGCACCACGCCCTCCTCCGCTGCTGTACCAGGCTCCAAAACCTTCAG                         GTGCGGACAGTCATCGGCGATGAAGGCCTGGCCATTGTGGGCGAGTGCTGC
genomic: AACAGCACCACGCCCTCCTCCGCTGCTGTACCAGGCTCCAAAACCTTCAGgtatacagag ... ggaaaaccagGTGCGGACAGTCATCGGCGATGAAGGCCTGGCCATTGTGGGCGAGTGCTGC
EST: gi|169066756|gb|FE473614.1|FE473614
EST:     AACAGCACCACGCCCTCCTCCGCTGCTGTACCAGGCTCCAAAACCTTCAG                         GTGCGGACAGTCATCGGCGATGAAGGCCTGGCCATTGTGGGCGAATGCTGC
genomic: AACAGCACCACGCCCTCCTCCGCTGCTGTACCAGGCTCCAAAACCTTCAGgtatacagag ... ggaaaaccagGTGCGGACAGTCATCGGCGATGAAGGCCTGGCCATTGTGGGCGAGTGCTGC
EST: gi|169071023|gb|FE476348.1|FE476348
EST:     AACAGCACCACGCCCTCCTCCGCTGCTGTACCAGGCTCCAAAACCTTCAG                         GTGCGGACAGTCATCGGCGATGAAGGCCTGGCCATTGTGGGCGAATGCTGC
genomic: AACAGCACCACGCCCTCCTCCGCTGCTGTACCAGGCTCCAAAACCTTCAGgtatacagag ... ggaaaaccagGTGCGGACAGTCATCGGCGATGAAGGCCTGGCCATTGTGGGCGAGTGCTGC

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: 30 (upstream exon), 33 (downstream exon)
Score: 13

GGCGCAGCTCCTCAAGCTGGATCTCATGACCACTACCTCCATCGAGGCGGAACAGCACCACGCCCTCCTCCGCTGCTGTACCAGGCTCCAAAACCTTCAGgtatacagag ... ggaaaaccagGTGCGGACAGTCATCGGCGATGAAGGCCTGGCCATTGTGGGCGAGTGCTGCAAGGATCTTCGCAAGGCCCGGATCGAGGACCACAACGACGAGGGGACCT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgtcacgtacgtgcatgcatggctatggcggcaatggttgacgggaaaaccagGTGCGGACAGTCATCGGCGATGAAGGCCTGGCCATTGTGGGCGAGTGCTGCAAGGATCTTCGCAAGGCCCGGATCGAGGACCACAACGACGAGGGGACCT
                                     ggttgac  putative branch site (score: 13)