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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggactctcgattttttcttgaagccaccattgcacttccttttccagCTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCACGTACCAGAAACTCTACGACGATTTGACAACCGCGTTCCACAACTTGGAA

Basic information

species Selaginella moellendorffii
transcript EFJ30330
intron # 19
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|169116507|gb|FE517532.1|FE517532
EST:     ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGT                         CTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
genomic: ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGTgtaaggactc ... ccttttccagCTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
EST: gi|169094896|gb|FE491630.1|FE491630
EST:     ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGT                         CTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
genomic: ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGTgtaaggactc ... ccttttccagCTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
EST: gi|169021092|gb|FE430701.1|FE430701
EST:     ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGT                         CTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
genomic: ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGTgtaaggactc ... ccttttccagCTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
EST: gi|169105223|gb|FE504895.1|FE504895
EST:     ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGT                         CTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
genomic: ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGTgtaaggactc ... ccttttccagCTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
EST: gi|169075917|gb|FE482836.1|FE482836
EST:     ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGT                         CTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
genomic: ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGTgtaaggactc ... ccttttccagCTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
EST: gi|169058960|gb|FE467728.1|FE467728
EST:     ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGT                         CTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
genomic: ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGTgtaaggactc ... ccttttccagCTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
EST: gi|169116508|gb|FE517533.1|FE517533
EST:     ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGT                         CTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
genomic: ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGTgtaaggactc ... ccttttccagCTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
EST: gi|169055454|gb|FE465852.1|FE465852
EST:     ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGT                         CTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
genomic: ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGTgtaaggactc ... ccttttccagCTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
EST: gi|169074665|gb|FE480895.1|FE480895
EST:     ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGT                         CTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
genomic: ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGTgtaaggactc ... ccttttccagCTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
EST: gi|169026429|gb|FE434742.1|FE434742
EST:     ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGT                         CTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
genomic: ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGTgtaaggactc ... ccttttccagCTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
EST: gi|169096020|gb|FE500011.1|FE500011
EST:     ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGT                         CTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
genomic: ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGTgtaaggactc ... ccttttccagCTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
EST: gi|169026425|gb|FE435778.1|FE435778
EST:     ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGT                         CTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
genomic: ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGTgtaaggactc ... ccttttccagCTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
EST: gi|169083647|gb|FE495380.1|FE495380
EST:     ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGT                         CTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
genomic: ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGTgtaaggactc ... ccttttccagCTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
EST: gi|169038845|gb|FE446988.1|FE446988
EST:     ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGT                         CTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTTTGCGCTGTGCTCCAC
genomic: ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGTgtaaggactc ... ccttttccagCTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
EST: gi|169067637|gb|FE475314.1|FE475314
EST:     ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGT                         CTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
genomic: ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGTgtaaggactc ... ccttttccagCTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
EST: gi|169047686|gb|FE454854.1|FE454854
EST:     ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGT                         CTCCCAAAAATTCGAAGATCCGTCCGAGGGCGAGTCTGGGCTGTGCTCCAG
genomic: ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGTgtaaggactc ... ccttttccagCTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
EST: gi|169077658|gb|FE484920.1|FE484920
EST:     ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGT                         CTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTTTGCGCTGTGCTCCAC
genomic: ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGTgtaaggactc ... ccttttccagCTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
EST: gi|169045568|gb|FE452529.1|FE452529
EST:     ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGT                         CTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC
genomic: ACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGTgtaaggactc ... ccttttccagCTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCAC

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), 34 (downstream exon)
Score: 47

GCTGTTGAGAAAGCTGCCGGATCCAAGGGTCAGAAAATAACTTTCAACATCATCAGGCAGCGCCTCGGAGACATCATATACCGTTTAGTgtaaggactc ... ccttttccagCTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCACGTACCAGAAACTCTACGACGATTTGACAACCGCGTTCCACAACTTGGAA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaaggactctcgattttttcttgaagccaccattgcacttccttttccagCTCCCAAAAATTCGAAGATCCGGCCGAGGGCGAGTCTGCGCTGTGCTCCACGTACCAGAAACTCTACGACGATTTGACAACCGCGTTCCACAACTTGGAA
                                        ttgcacttccttttcc  CT-rich tract
                 attttttctt  TA-rich tract