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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgttacgaatctccggttttcacatacattctgatttttgtttgttttgagataagAAAACTGCATTGTTGCATGCCTCGATGTGCTTCAACTTACTCACGGTGCTGTGGCTACG

Basic information

species Selaginella moellendorffii
transcript EFJ25849
intron # 8
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|169093669|gb|FE492375.1|FE492375
EST:     TCCAGTGGTAGATCAGG                         AAAACTGCATTGTTGCATGCCTCGATGTGCTTCAACTTACTCACGGTGCTG
genomic: TCCAGTGGTAGATCAGGgtacgttacg ... ttgagataagAAAACTGCATTGTTGCATGCCTCGATGTGCTTCAACTTACTCACGGTGCTG
EST: gi|169054840|gb|FE463444.1|FE463444
EST:     CCATACCATGCACGACGGGAAGTTTCTTCACCTTCCAGTGGTAGATCAGG                         AAAACTGCATTGTTGCATGCCTCGATGTGCTTCAACTTACTCACGGTGCTG
genomic: CCATACCATGCACGACGGGAAGTTTCTTCACCTTCCAGTGGTAGATCAGGgtacgttacg ... ttgagataagAAAACTGCATTGTTGCATGCCTCGATGTGCTTCAACTTACTCACGGTGCTG
EST: gi|169038934|gb|FE449651.1|FE449651
EST:     AGTGGTAGATCAGG                         AAAACTGCATTGTTGCATGCCTCGATGTGCTTCAACTTACTCACGGTGCTG
genomic: AGTGGTAGATCAGGgtacgttacg ... ttgagataagAAAACTGCATTGTTGCATGCCTCGATGTGCTTCAACTTACTCACGGTGCTG
EST: gi|70670362|gb|DN838939.1|DN838939
EST:     CCATACCATGCACGACGGGAAGTTTCTTCACCTTCCAGTGGTAGATCAGG                         AAAACTGCATTGTTGCATGCCTCGATGTGCTTCAACTTACTCACGGTGCTG
genomic: CCATACCATGCACGACGGGAAGTTTCTTCACCTTCCAGTGGTAGATCAGGgtacgttacg ... ttgagataagAAAACTGCATTGTTGCATGCCTCGATGTGCTTCAACTTACTCACGGTGCTG
EST: gi|169088100|gb|FE496459.1|FE496459
EST:     CCATACCATGCACGACGGGAAGTTTCTTCACCTTCCAGTGGTAGATCAGG                         AAAACTGCATTGTTGCATGCCTCGATGTGCTTCAACTTACTCACGGTGCTG
genomic: CCATACCATGCACGACGGGAAGTTTCTTCACCTTCCAGTGGTAGATCAGGgtacgttacg ... ttgagataagAAAACTGCATTGTTGCATGCCTCGATGTGCTTCAACTTACTCACGGTGCTG
EST: gi|169054839|gb|FE463443.1|FE463443
EST:     TCACCTTCCAGTGGTAGATCAGG                         AAAACTGCATTGTTGCATGCCTCGATGTGCTTCAACTTACTCACGGTGCTG
genomic: TCACCTTCCAGTGGTAGATCAGGgtacgttacg ... ttgagataagAAAACTGCATTGTTGCATGCCTCGATGTGCTTCAACTTACTCACGGTGCTG

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), 29 (downstream exon)
Score: 14

ACTCCAAATCCTGAATGCGTTACACTGGAAACAACCATTGTAGATGCACTCCATACCATGCACGACGGGAAGTTTCTTCACCTTCCAGTGGTAGATCAGGgtacgttacg ... ttgagataagAAAACTGCATTGTTGCATGCCTCGATGTGCTTCAACTTACTCACGGTGCTGTGGCTACG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttacgaatctccggttttcacatacattctgatttttgtttgttttgagataagAAAACTGCATTGTTGCATGCCTCGATGTGCTTCAACTTACTCACGGTGCTGTGGCTACG
                           ttctgat  putative branch site (score: 14)
                                 tttttgtttgtttt  CT-rich tract
                                atttttgtttgtttt  TA-rich tract