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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatgtgataaggatgaacaacacaacaggtttcacctatttttcttttgcagATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGGTGCTATGGGGAAAGTAACTTATATTGCACCGCATGGTCAGTATAGTCTCC

Basic information

species Selaginella moellendorffii
transcript EFJ30330
intron # 6
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:     GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCA                         ATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGGT
genomic: GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCAgtaagtatgt ... tcttttgcagATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGGT
EST: gi|169081165|gb|FE489259.1|FE489259
EST:     GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCA                         ATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGGT
genomic: GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCAgtaagtatgt ... tcttttgcagATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGGT
EST: gi|169074666|gb|FE480896.1|FE480896
EST:     GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCA                         ATTCGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGA
genomic: GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCAgtaagtatgt ... tcttttgcagATT-GTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGG
EST: gi|169075918|gb|FE482837.1|FE482837
EST:     GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCA                         ATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGAT
genomic: GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCAgtaagtatgt ... tcttttgcagATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGGT
EST: gi|169096021|gb|FE500012.1|FE500012
EST:     GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCA                         ATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGAT
genomic: GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCAgtaagtatgt ... tcttttgcagATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGGT
EST: gi|169067638|gb|FE475315.1|FE475315
EST:     GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCA                         ATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGGT
genomic: GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCAgtaagtatgt ... tcttttgcagATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGGT
EST: gi|169047687|gb|FE454855.1|FE454855
EST:     GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCA                         ATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGAT
genomic: GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCAgtaagtatgt ... tcttttgcagATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGGT
EST: gi|169058961|gb|FE467729.1|FE467729
EST:     GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCA                         ATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGAT
genomic: GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCAgtaagtatgt ... tcttttgcagATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGGT
EST: gi|169045569|gb|FE452530.1|FE452530
EST:     GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCA                         ATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGGT
genomic: GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCAgtaagtatgt ... tcttttgcagATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGGT
EST: gi|169080609|gb|FE490952.1|FE490952
EST:     GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCA                         ATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGAT
genomic: GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCAgtaagtatgt ... tcttttgcagATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGGT
EST: gi|169038846|gb|FE446989.1|FE446989
EST:     GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCA                         ATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGGT
genomic: GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCAgtaagtatgt ... tcttttgcagATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGGT
EST: gi|169094897|gb|FE491631.1|FE491631
EST:     GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCA                         ATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGAT
genomic: GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCAgtaagtatgt ... tcttttgcagATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGGT
EST: gi|169083648|gb|FE495381.1|FE495381
EST:     GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCA                         ATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGAT
genomic: GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCAgtaagtatgt ... tcttttgcagATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGGT

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: 34 (upstream exon), 33 (downstream exon)
Score: 21

GTGTTGGATCCGCCATCACTGGTGGAGACTTGTATGCAgtaagtatgt ... tcttttgcagATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGGTGCTATGGGGAAAGTAACTTATATTGCACCGCATGGTCAGTATAGTCTCC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagtatgtgataaggatgaacaacacaacaggtttcacctatttttcttttgcagATTGTCCATGAGAACTCGCTTATGGAACATCATATTGCTCTCCCTGCGGGTGCTATGGGGAAAGTAACTTATATTGCACCGCATGGTCAGTATAGTCTCC
                                tttcacctatttttct  CT-rich tract
                                       tatttttctttt  TA-rich tract