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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctggcactcttttttgtcctaagagactagttccttacaaagttttgtattcatagGACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGTGGACTGATGCCTCTCTTTGACCCTCCCCGTCACGACAGCGCTGAAACCA

Basic information

species Selaginella moellendorffii
transcript EFJ18860
intron # 11
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|169021094|gb|FE430703.1|FE430703
EST:     TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAG                         GACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
genomic: TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAGgtctggcact ... gtattcatagGACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
EST: gi|169116091|gb|FE517454.1|FE517454
EST:     TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAG                         GACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
genomic: TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAGgtctggcact ... gtattcatagGACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
EST: gi|169028222|gb|FE432188.1|FE432188
EST:     TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAG                         GACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTCTGT
genomic: TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAGgtctggcact ... gtattcatagGACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
EST: gi|169074592|gb|FE480874.1|FE480874
EST:     TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAG                         GACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
genomic: TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAGgtctggcact ... gtattcatagGACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
EST: gi|169114143|gb|FE516822.1|FE516822
EST:     TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAG                         GACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
genomic: TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAGgtctggcact ... gtattcatagGACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
EST: gi|169107442|gb|FE508311.1|FE508311
EST:     TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAG                         GACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
genomic: TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAGgtctggcact ... gtattcatagGACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
EST: gi|169027081|gb|FE435615.1|FE435615
EST:     TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAG                         GACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
genomic: TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAGgtctggcact ... gtattcatagGACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
EST: gi|169026011|gb|FE434454.1|FE434454
EST:     TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAG                         GACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
genomic: TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAGgtctggcact ... gtattcatagGACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
EST: gi|169096134|gb|FE500294.1|FE500294
EST:     TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAG                         GACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTCTGT
genomic: TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAGgtctggcact ... gtattcatagGACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
EST: gi|169045923|gb|FE451233.1|FE451233
EST:     TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAG                         GACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTCTGT
genomic: TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAGgtctggcact ... gtattcatagGACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
EST: gi|169081472|gb|FE487733.1|FE487733
EST:     TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAG                         GACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTCTGT
genomic: TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAGgtctggcact ... gtattcatagGACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
EST: gi|169110944|gb|FE509856.1|FE509856
EST:     TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAG                         GACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTCTGT
genomic: TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAGgtctggcact ... gtattcatagGACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
EST: gi|169022707|gb|FE429734.1|FE429734
EST:     TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAG                         GACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTCTGT
genomic: TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAGgtctggcact ... gtattcatagGACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
EST: gi|169023502|gb|FE431920.1|FE431920
EST:     TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAG                         GACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
genomic: TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAGgtctggcact ... gtattcatagGACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
EST: gi|169027227|gb|FE436125.1|FE436125
EST:     TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAG                         GACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTCTGT
genomic: TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAGgtctggcact ... gtattcatagGACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
EST: gi|169052201|gb|FE461411.1|FE461411
EST:     TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAG                         GACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
genomic: TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAGgtctggcact ... gtattcatagGACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
EST: gi|169083022|gb|FE488544.1|FE488544
EST:     TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAG                         GACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
genomic: TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAGgtctggcact ... gtattcatagGACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
EST: gi|169029737|gb|FE438344.1|FE438344
EST:     TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAG                         GACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTCTGT
genomic: TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAGgtctggcact ... gtattcatagGACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
EST: gi|169082644|gb|FE486203.1|FE486203
EST:     TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAG                         GACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTCTGT
genomic: TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAGgtctggcact ... gtattcatagGACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
EST: gi|169028953|gb|FE438626.1|FE438626
EST:     TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAG                         GACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
genomic: TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAGgtctggcact ... gtattcatagGACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
EST: gi|169044104|gb|FE452106.1|FE452106
EST:     TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAG                         GACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT
genomic: TCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAGgtctggcact ... gtattcatagGACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGT

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), 35 (downstream exon)
Score: 87

CGCCTTGGCTCACAATAAGTCCGAAATAGCAGACAAGGTTCACTCCATCATCGACAAGTTCGCTGAGCGAGGGCTTCGTTCTCTTGCCGTTGCCATACAGgtctggcact ... gtattcatagGACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGTGGACTGATGCCTCTCTTTGACCCTCCCCGTCACGACAGCGCTGAAACCA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggcactcttttttgtcctaagagactagttccttacaaagttttgtattcatagGACGTACCCGAGAAGAACAAGGAAAGTCCGGGAGGACCATGGAGGTTTTGTGGACTGATGCCTCTCTTTGACCCTCCCCGTCACGACAGCGCTGAAACCA
                              tccttac  putative branch site (score: 87)
                                         ttttgtatt  TA-rich tract