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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacaaatctttcgcttggtttcgctctggaagatcctgatcgatcttcttttttttttactagATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGTCTCAAGACGCGAAAGTATGGCGAGGTTCTCCCGGCGCTCACTAACATGG

Basic information

species Selaginella moellendorffii
transcript EFJ28889
intron # 12
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|169057671|gb|FE463722.1|FE463722
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT
EST: gi|169060119|gb|FE468105.1|FE468105
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT
EST: gi|169109743|gb|FE511814.1|FE511814
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT
EST: gi|169103370|gb|FE507542.1|FE507542
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT
EST: gi|169030928|gb|FE440328.1|FE440328
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT
EST: gi|169061438|gb|FE469537.1|FE469537
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT
EST: gi|169032657|gb|FE436930.1|FE436930
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT
EST: gi|169022654|gb|FE429707.1|FE429707
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT
EST: gi|169022653|gb|FE429706.1|FE429706
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT
EST: gi|169027728|gb|FE434865.1|FE434865
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT
EST: gi|169053882|gb|FE460973.1|FE460973
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT
EST: gi|169101346|gb|FE502515.1|FE502515
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT
EST: gi|169115322|gb|FE517025.1|FE517025
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT

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: 131

GGAGGGAGTCACGTATGGAGCCGGCATTGGACCCGGCGTGTACGACATCCACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGTCTCAAGACGCGAAAGTATGGCGAGGTTCTCCCGGCGCTCACTAACATGG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcgcttggtttcgctctggaagatcctgatcgatcttcttttttttttactagATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGTCTCAAGACGCGAAAGTATGGCGAGGTTCTCCCGGCGCTCACTAACATGG
                         tcctgat  putative branch site (score: 131)
                               tcgatcttcttttttt  CT-rich tract
                                  atcttctttttttttt  TA-rich tract