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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatagcgctgattctttctcctcaccttcaagcatactgatcttatgcttatttttcttgtgtagGACCCCCGACCAGGTAATCGTAAGAACACTCAAAGGCCGGATGGATTAGGACTATGGTGCTTTCAGTTTGTTTATACTGGGCACTTGGAACATTTGGTCA

Basic information

species Selaginella moellendorffii
transcript EFJ32896
intron # 6
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|169049745|gb|FE457785.1|FE457785
EST:     TCGGTTGATCGTGACTGTCTGAGCGGCTGGGGAGGAATCGTCTACGTTGT                         GACCCCCGACCAGGTAATCGTAAGAACACTCAAAGGCCGGATGGATTAGGA
genomic: TCGGTTGATCGTGACTGTCTGAGCGGCTGGGGAGGAATCGTCTACGTTGTgtaatagcgc ... tcttgtgtagGACCCCCGACCAGGTAATCGTAAGAACACTCAAAGGCCGGATGGATTAGGA
EST: gi|169101740|gb|FE501245.1|FE501245
EST:     TCGGTTGATCGTGACTGTCTGAGCGGCTGGGGAGGAATCGTCTACGTTGT                         GACCCCCGACCAGGTAATCGTAAGAACACTCAAAGGCCGGATGGATTAGGA
genomic: TCGGTTGATCGTGACTGTCTGAGCGGCTGGGGAGGAATCGTCTACGTTGTgtaatagcgc ... tcttgtgtagGACCCCCGACCAGGTAATCGTAAGAACACTCAAAGGCCGGATGGATTAGGA
EST: gi|169045729|gb|FE451702.1|FE451702
EST:     TCGGTTGATCGTGACTGTCTGAGCGGCTGGGGAGGAATCGTCTACGTTGT                         GACCCCCGACCAGGTAATCGTAAGAACACTCAAAGGCCGCATGGATTAGGA
genomic: TCGGTTGATCGTGACTGTCTGAGCGGCTGGGGAGGAATCGTCTACGTTGTgtaatagcgc ... tcttgtgtagGACCCCCGACCAGGTAATCGTAAGAACACTCAAAGGCCGGATGGATTAGGA
EST: gi|169043818|gb|FE453809.1|FE453809
EST:     TCGGTTGATCGTGACTGTCTGAGCGGCTGGGGAGGAATCGTCTACGTTGT                         GACCCCCGACCAGGTAATCGTAAGAACACTCAAAGGCCGGATGGATTAGGA
genomic: TCGGTTGATCGTGACTGTCTGAGCGGCTGGGGAGGAATCGTCTACGTTGTgtaatagcgc ... tcttgtgtagGACCCCCGACCAGGTAATCGTAAGAACACTCAAAGGCCGGATGGATTAGGA
EST: gi|169049744|gb|FE457784.1|FE457784
EST:     TCGGTTGATCGTGACTGTCTGAGCGGCTGGGGAGGAATCGTCTACGTTGT                         GACCCCCGACCAGGTAATCGTAAGAACACTCAAAGGCCGGATGGATTAGGA
genomic: TCGGTTGATCGTGACTGTCTGAGCGGCTGGGGAGGAATCGTCTACGTTGTgtaatagcgc ... tcttgtgtagGACCCCCGACCAGGTAATCGTAAGAACACTCAAAGGCCGGATGGATTAGGA
EST: gi|169069806|gb|FE480305.1|FE480305
EST:     TCGGTTGATCGTGACTGTCTGAGCGGCTGGGGAGGAATCGTCTACGTTGT                         GACCCCCGACCAGGTAATCGTAAGAACACTCAAAGGCCGCATGGATTAGGA
genomic: TCGGTTGATCGTGACTGTCTGAGCGGCTGGGGAGGAATCGTCTACGTTGTgtaatagcgc ... tcttgtgtagGACCCCCGACCAGGTAATCGTAAGAACACTCAAAGGCCGGATGGATTAGGA
EST: gi|70669820|gb|DN838397.1|DN838397
EST:     TCGGTTGATCGTGACTGTCTGAGCGGCTGGGGAGGAATCGTCTACGTTGT                         GACCCCCGACCAGGTAATCGTAAGAACACTCAAAGGCCGGATGGATTAGGA
genomic: TCGGTTGATCGTGACTGTCTGAGCGGCTGGGGAGGAATCGTCTACGTTGTgtaatagcgc ... tcttgtgtagGACCCCCGACCAGGTAATCGTAAGAACACTCAAAGGCCGGATGGATTAGGA
EST: gi|169045728|gb|FE451701.1|FE451701
EST:     TCGGTTGATCGTGACTGTCTGAGCGGCTGGGGAGGAATCGTCTACGTTGT                         GACCCCCGACCAGGTAATCGTAAGAACACTCAAAGGCCGCATGGATTAGGA
genomic: TCGGTTGATCGTGACTGTCTGAGCGGCTGGGGAGGAATCGTCTACGTTGTgtaatagcgc ... tcttgtgtagGACCCCCGACCAGGTAATCGTAAGAACACTCAAAGGCCGGATGGATTAGGA
EST: gi|169043817|gb|FE453808.1|FE453808
EST:     TCGGTTGATCGTGACTGTCTGAGCGGCTGGGGAGGAATCGTCTACGTTGT                         GACCCCCGACCAGGTAATCGTAAGAACACTCAAAGGCCGGATGGATTAGGA
genomic: TCGGTTGATCGTGACTGTCTGAGCGGCTGGGGAGGAATCGTCTACGTTGTgtaatagcgc ... tcttgtgtagGACCCCCGACCAGGTAATCGTAAGAACACTCAAAGGCCGGATGGATTAGGA

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: 33 (upstream exon), 35 (downstream exon)
Score: 57

GAGCCTGAAGACCTTTTTGAAACGATCTCACAAGCGCTGATCTCCTCGGTTGATCGTGACTGTCTGAGCGGCTGGGGAGGAATCGTCTACGTTGTgtaatagcgc ... tcttgtgtagGACCCCCGACCAGGTAATCGTAAGAACACTCAAAGGCCGGATGGATTAGGACTATGGTGCTTTCAGTTTGTTTATACTGGGCACTTGGAACATTTGGTCA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attctttctcctcaccttcaagcatactgatcttatgcttatttttcttgtgtagGACCCCCGACCAGGTAATCGTAAGAACACTCAAAGGCCGGATGGATTAGGACTATGGTGCTTTCAGTTTGTTTATACTGGGCACTTGGAACATTTGGTCA
                        tactgat  putative branch site (score: 57)
                                   tgcttatttttctt  putative PPT
                                ttatgcttattttt  TA-rich tract