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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtttcgaaaatctctatcaatttatgcttactgttgtttggatgcagCATGATATTGTTTCCGAGTACCTTGACAGCGGGAAGCAGATTGACGAGCAAGGAGTCGAGGACGCATTTGAACTTTTGCATGAGATATCCGAGCGCGTGA

Basic information

species Selaginella moellendorffii
transcript EFJ36319
intron # 9
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|169094662|gb|FE494555.1|FE494555
EST:     ACCTGGTTGCCATTACAAGCGAAAAATCCTTCTACATCTTGAAATACAAC                         CATGATATTGTTTCCGAGTACCTTGACAGCGGGAAGCAGATTGACGAGCAA
genomic: ACCTGGTTGCCATTACAAGCGAAAAATCCTTCTACATCTTGAAATACAACgttagtttcg ... ttggatgcagCATGATATTGTTTCCGAGTACCTTGACAGCGGGAAGCAGATTGACGAGCAA
EST: gi|169109461|gb|FE512872.1|FE512872
EST:     ACCTGGTTGCCATTACAAGCGAAAAATCCTTCTACATCTTGAAATACAAC                         CATGATATTGTTTCCGAGTACCTTGACAGCGGGAAGCAGATTGACGAGCAA
genomic: ACCTGGTTGCCATTACAAGCGAAAAATCCTTCTACATCTTGAAATACAACgttagtttcg ... ttggatgcagCATGATATTGTTTCCGAGTACCTTGACAGCGGGAAGCAGATTGACGAGCAA
EST: gi|169083821|gb|FE492733.1|FE492733
EST:     ATCTGGTTGCAATTACAAGCGAAAAATCCTTCTACATCTTGAAATACAAC                         CATGATATTGTTTCCGAGTACCTTGACAGCGGGAAGCAGATTGACGAGCAA
genomic: ACCTGGTTGCCATTACAAGCGAAAAATCCTTCTACATCTTGAAATACAACgttagtttcg ... ttggatgcagCATGATATTGTTTCCGAGTACCTTGACAGCGGGAAGCAGATTGACGAGCAA
EST: gi|169067594|gb|FE475297.1|FE475297
EST:     ATCTGGTTGCAATTACAAGCGAAAAATCCTTCTACATCTTGAAATACAAC                         CATGATATTGTTTCCGAGTACCTTGACAGCGGGAAGCAGATTGACGAGCAA
genomic: ACCTGGTTGCCATTACAAGCGAAAAATCCTTCTACATCTTGAAATACAACgttagtttcg ... ttggatgcagCATGATATTGTTTCCGAGTACCTTGACAGCGGGAAGCAGATTGACGAGCAA
EST: gi|169096198|gb|FE500358.1|FE500358
EST:     ATCTGGTTGCAATTACAAGCGAAAAATCCTTCTACATCTTGAAATACAAC                         CATGATATTGTTTCCGAGTACCTTGACAGCGGGAAGCAGATTGACGAGCAA
genomic: ACCTGGTTGCCATTACAAGCGAAAAATCCTTCTACATCTTGAAATACAACgttagtttcg ... ttggatgcagCATGATATTGTTTCCGAGTACCTTGACAGCGGGAAGCAGATTGACGAGCAA
EST: gi|169056508|gb|FE464916.1|FE464916
EST:     ATCTGGTTGCAATTACAAGCGAAAAATCCTTCTACATCTTGAAATACAAC                         CATGATATTGTTTCCGAGTACCTTGACAGCGGGAAGCAGATTGACGAGCAA
genomic: ACCTGGTTGCCATTACAAGCGAAAAATCCTTCTACATCTTGAAATACAACgttagtttcg ... ttggatgcagCATGATATTGTTTCCGAGTACCTTGACAGCGGGAAGCAGATTGACGAGCAA
EST: gi|169021101|gb|FE431412.1|FE431412
EST:     ACCTGGTTGCCATTACAAGCGAAAAATCCTTCTACATCTTGAAATACAAC                         CATGATATTGTTTCCGAGTACCTTGACAGCGGGAAGCAGATTGACGAGCAA
genomic: ACCTGGTTGCCATTACAAGCGAAAAATCCTTCTACATCTTGAAATACAACgttagtttcg ... ttggatgcagCATGATATTGTTTCCGAGTACCTTGACAGCGGGAAGCAGATTGACGAGCAA
EST: gi|169025538|gb|FE435008.1|FE435008
EST:     ATCTGGTTGCAATTACAAGCGAAAAATCCTTCTACATCTTGAAATACAAC                         CATGATATTGTTTCCGAGTACCTTGACAGCGGGAAGCAGATTGACGAGCAA
genomic: ACCTGGTTGCCATTACAAGCGAAAAATCCTTCTACATCTTGAAATACAACgttagtttcg ... ttggatgcagCATGATATTGTTTCCGAGTACCTTGACAGCGGGAAGCAGATTGACGAGCAA
EST: gi|169066106|gb|FE475645.1|FE475645
EST:     ATCTGGTTGCAATTACAAGCGAAAAATCCTTCTACATCTTGAAATACAAC                         CATGATATTGTTTCCGAGTACCTTGACAGCGGGAAGCAGATTGACGAGCAA
genomic: ACCTGGTTGCCATTACAAGCGAAAAATCCTTCTACATCTTGAAATACAACgttagtttcg ... ttggatgcagCATGATATTGTTTCCGAGTACCTTGACAGCGGGAAGCAGATTGACGAGCAA
EST: gi|169039285|gb|FE447829.1|FE447829
EST:     ACCTGGTTGCCATTACAAGCGAAAAATCCTTCTACATCTTGAAATACAAC                         CATGATATTGTTTCCGAGTACCTTGACAGCGGGAAGCAGATTGACGAGCAA
genomic: ACCTGGTTGCCATTACAAGCGAAAAATCCTTCTACATCTTGAAATACAACgttagtttcg ... ttggatgcagCATGATATTGTTTCCGAGTACCTTGACAGCGGGAAGCAGATTGACGAGCAA
EST: gi|169082250|gb|FE490606.1|FE490606
EST:     ACCTGGTTGCCATTACAAGCGAAAAATCCTTCTACATCTTGAAATACAAC                         CATGATATTGTTTCCGAGTACCTTGACAGCGGGAAGCAGATTGACGAGCAA
genomic: ACCTGGTTGCCATTACAAGCGAAAAATCCTTCTACATCTTGAAATACAACgttagtttcg ... ttggatgcagCATGATATTGTTTCCGAGTACCTTGACAGCGGGAAGCAGATTGACGAGCAA

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), 35 (downstream exon)
Score: 11

AACATCTTTTGGGCTGACAGCGGGGACCTGGTTGCCATTACAAGCGAAAAATCCTTCTACATCTTGAAATACAACgttagtttcg ... ttggatgcagCATGATATTGTTTCCGAGTACCTTGACAGCGGGAAGCAGATTGACGAGCAAGGAGTCGAGGACGCATTTGAACTTTTGCATGAGATATCCGAGCGCGTGA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttagtttcgaaaatctctatcaatttatgcttactgttgtttggatgcagCATGATATTGTTTCCGAGTACCTTGACAGCGGGAAGCAGATTGACGAGCAAGGAGTCGAGGACGCATTTGAACTTTTGCATGAGATATCCGAGCGCGTGA
                                tgcttac  putative branch site (score: 11)
                          tatcaatttat  TA-rich tract