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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtgtgctgcatcatgatgctcttgtttttatcatttatgtttggttttccagGGTGTGATGATTTCGCATGCAAATATCGTGTCAACTGTTGCTGGTGTTATGACTGCTGTACCGGAACTCAATCACAATGATGTCTACATTGCTTATCTCC

Basic information

species Selaginella moellendorffii
transcript EFJ27012
intron # 3
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|169099835|gb|FE500840.1|FE500840
EST:     AGGATCTTGCTGTTATCATGTATACGAGCGGCAGTACGGGTATGCCCAAG                         GGTGTGATGATTTCGCATGCAAATATCGTGTCAACTGTTGCTGGTGTTATG
genomic: AGGATCTTGCTGTTATCATGTATACGAGCGGCAGTACGGGTATGCCCAAGgtcagtgtgc ... ggttttccagGGTGTGATGATTTCGCATGCAAATATCGTGTCAACTGTTGCTGGTGTTATG
EST: gi|169053815|gb|FE462895.1|FE462895
EST:     AGGATCTTGCTGTTATCATGTATACGAGCGGCAGTACGGGTATGCCCAAG                         GGTGTGATGATTTCGCATGCAAATATCGTGTCAACTGTTGCTGGTGTTATG
genomic: AGGATCTTGCTGTTATCATGTATACGAGCGGCAGTACGGGTATGCCCAAGgtcagtgtgc ... ggttttccagGGTGTGATGATTTCGCATGCAAATATCGTGTCAACTGTTGCTGGTGTTATG
EST: gi|169068348|gb|FE479172.1|FE479172
EST:     AGGATCTTGCTGTTATCATGTATACGAGCGGCAGTACGGGTATGCCCAAG                         GGTGTGATGATTTCGCATGCAAATATCGTGTCAACTGTTGCTGGTGTTATG
genomic: AGGATCTTGCTGTTATCATGTATACGAGCGGCAGTACGGGTATGCCCAAGgtcagtgtgc ... ggttttccagGGTGTGATGATTTCGCATGCAAATATCGTGTCAACTGTTGCTGGTGTTATG
EST: gi|169025464|gb|FE436078.1|FE436078
EST:     AGGATCTTGCTGTTATCATGTATACGAGCGGCAGTACGGGTATGCCCAAG                         GGTGTGATGATTTCGCATGCAAATATCGTGTCAACTGTTGCTGGTGTTATG
genomic: AGGATCTTGCTGTTATCATGTATACGAGCGGCAGTACGGGTATGCCCAAGgtcagtgtgc ... ggttttccagGGTGTGATGATTTCGCATGCAAATATCGTGTCAACTGTTGCTGGTGTTATG
EST: gi|169020907|gb|FE431985.1|FE431985
EST:     AGGATCTTGCTGTTATCATGTATACGAGCGGCAGTACGGGTATGCCCAAG                         GGTGTGATGATTTCGCATGCAAATATCGTGTCAACTGTTGCTGGTGTTATG
genomic: AGGATCTTGCTGTTATCATGTATACGAGCGGCAGTACGGGTATGCCCAAGgtcagtgtgc ... ggttttccagGGTGTGATGATTTCGCATGCAAATATCGTGTCAACTGTTGCTGGTGTTATG
EST: gi|169087630|gb|FE494669.1|FE494669
EST:     AGGATCTTGCTGTTATCATGTATACGAGCGGCAGTACGGGTATGCCCAAG                         GGTGTGATGATTTCGCATGCAAATATCGTGTCAACTGTTGCTGGTGTTATG
genomic: AGGATCTTGCTGTTATCATGTATACGAGCGGCAGTACGGGTATGCCCAAGgtcagtgtgc ... ggttttccagGGTGTGATGATTTCGCATGCAAATATCGTGTCAACTGTTGCTGGTGTTATG

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: 54

GGAGAAATTGGGACGTGACACGCCAAGCGAGCCTCGTTTGCCGGCACCTGAGGATCTTGCTGTTATCATGTATACGAGCGGCAGTACGGGTATGCCCAAGgtcagtgtgc ... ggttttccagGGTGTGATGATTTCGCATGCAAATATCGTGTCAACTGTTGCTGGTGTTATGACTGCTGTACCGGAACTCAATCACAATGATGTCTACATTGCTTATCTCC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcagtgtgctgcatcatgatgctcttgtttttatcatttatgtttggttttccagGGTGTGATGATTTCGCATGCAAATATCGTGTCAACTGTTGCTGGTGTTATGACTGCTGTACCGGAACTCAATCACAATGATGTCTACATTGCTTATCTCC
                                               ttttcc  CT-rich tract
                        ttgtttttatcattta  TA-rich tract