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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttggagttcttttgtaatgcgtgactaactttgtcatgaaacagTTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGAGCGAGGAAACGAAATGGCTGAG

Basic information

species Selaginella moellendorffii
transcript EFJ30330
intron # 10
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|169055455|gb|FE465853.1|FE465853
EST:     CGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAG                         TTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGAGCGAGGAAAC
genomic: CGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAGgtatttggag ... catgaaacagTTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGAGCGAGGAAAC
EST: gi|169098593|gb|FE497219.1|FE497219
EST:     CGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAG                         TTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGAGCGAGGAAAC
genomic: CGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAGgtatttggag ... catgaaacagTTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGAGCGAGGAAAC
EST: gi|169081165|gb|FE489259.1|FE489259
EST:     CGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAG                         TTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGAGCGAGGAAAC
genomic: CGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAGgtatttggag ... catgaaacagTTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGAGCGAGGAAAC
EST: gi|169074666|gb|FE480896.1|FE480896
EST:     CGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAG                         TTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGAACGAGGAAAC
genomic: CGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAGgtatttggag ... catgaaacagTTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGAGCGAGGAAAC
EST: gi|169075918|gb|FE482837.1|FE482837
EST:     CGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAG                         TTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGAACGAGGAAAC
genomic: CGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAGgtatttggag ... catgaaacagTTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGAGCGAGGAAAC
EST: gi|169096021|gb|FE500012.1|FE500012
EST:     CGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAG                         TTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGA
genomic: CGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAGgtatttggag ... catgaaacagTTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGA
EST: gi|169067638|gb|FE475315.1|FE475315
EST:     CGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAG                         TTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGAGCGAGGAAAC
genomic: CGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAGgtatttggag ... catgaaacagTTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGAGCGAGGAAAC
EST: gi|169077659|gb|FE484921.1|FE484921
EST:     CGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAG                         TTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGAACGAGGAAAC
genomic: CGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAGgtatttggag ... catgaaacagTTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGAGCGAGGAAAC
EST: gi|169047687|gb|FE454855.1|FE454855
EST:     CGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAG                         TTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGA
genomic: CGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAGgtatttggag ... catgaaacagTTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGA
EST: gi|169058961|gb|FE467729.1|FE467729
EST:     CGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAG                         TTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGAACGAGGAAAC
genomic: CGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAGgtatttggag ... catgaaacagTTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGAGCGAGGAAAC
EST: gi|169045569|gb|FE452530.1|FE452530
EST:     CGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAG                         TTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGAGCGAGGAAAC
genomic: CGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAGgtatttggag ... catgaaacagTTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGAGCGAGGAAAC
EST: gi|169094897|gb|FE491631.1|FE491631
EST:     CGGGAGCATTTGGCTGTGGAAAGACTGTTATTAGTCAGGCGCTTTCGAAG                         TTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGAACGAGGAAAC
genomic: CGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAGgtatttggag ... catgaaacagTTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGAGCGAGGAAAC
EST: gi|169026426|gb|FE435779.1|FE435779
EST:     CGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAG                         TTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGAGCGAGGAAAC
genomic: CGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAGgtatttggag ... catgaaacagTTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGAGCGAGGAAAC

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: 22

CATTTTGGATGCGCTGTTTCCTTCCGTGCTGGGGGGAACGTGTGCTATTCCGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAGgtatttggag ... catgaaacagTTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGAGCGAGGAAACGAAATGGCTGAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtatttggagttcttttgtaatgcgtgactaactttgtcatgaaacagTTTTCGAACTCTGACGCTGTCATTTACGTGGGATGTGGCGAGCGAGGAAACGAAATGGCTGAG
                                 gactaac  putative branch site (score: 22)
                                       ctttgtc  CT-rich tract
                    ttttgtaat  TA-rich tract