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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACAGATACTAAGAAAATCTCGGCTGTTTCAATCTTTTTTGAAACGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaatagtagaagtctcaaagaacttcgctctttgagactaacctggagtcttatccag

Basic information

species Selaginella moellendorffii
transcript EFJ32604
intron # 7
splice site 5'
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|169023493|gb|FE431404.1|FE431404
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAAAGCGCGACACTCTTCCGGC-AAAACTCATCG
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCG
EST: gi|169094385|gb|FE495585.1|FE495585
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGGTTTATTGACTACGATCAG                         CTTGAAAAAAGCGCGACACTCTTCCCGGC-AAAACTCATCGTGGCTGGAGC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCC-GGCCAAAACTCATCGTGGCCGGAGC
EST: gi|169087333|gb|FE491746.1|FE491746
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
EST: gi|169051134|gb|FE458681.1|FE458681
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
EST: gi|169048578|gb|FE454447.1|FE454447
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCTGGAGCC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
EST: gi|169019270|gb|FE428183.1|FE428183
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
EST: gi|169096116|gb|FE500276.1|FE500276
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGT
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGT
EST: gi|169082303|gb|FE488046.1|FE488046
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAANAAAGCGCGACACTCTTCCCGGC-AAAACTCATCGTGGCCGGAGC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCC-GGCCAAAACTCATCGTGGCCGGAGC
EST: gi|169087154|gb|FE493101.1|FE493101
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
EST: gi|169098871|gb|FE502268.1|FE502268
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAAAGCGCGACACTCTTCCGGCCGAAACTCATCGTGGCTGGAGCC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
EST: gi|169025097|gb|FE434697.1|FE434697
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAA-GCGCGACACTCTT
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTT
EST: gi|169077299|gb|FE485601.1|FE485601
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAA-GCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
EST: gi|169080654|gb|FE487175.1|FE487175
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCTGGAGCC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
EST: gi|169075645|gb|FE482031.1|FE482031
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAAAGCGCGACACTCTTCCCGGCCAAA-CTCATCGTGGCCGGAGC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCC-GGCCAAAACTCATCGTGGCCGGAGC
EST: gi|169062067|gb|FE469152.1|FE469152
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAANAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
EST: gi|169088141|gb|FE493380.1|FE493380
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCTGGAGCC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
EST: gi|169113402|gb|FE514729.1|FE514729
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCTGGAGCC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
EST: gi|169061498|gb|FE469597.1|FE469597
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAAAGCGCGACACTCTATC-GGCCAAAACTCATCGTGGCCGGAGC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCT-TCCGGCCAAAACTCATCGTGGCCGGAGC
EST: gi|169032798|gb|FE438306.1|FE438306
EST:     CGATGCCATATACGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAATAAGCGCGACACTCTTCC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCC
EST: gi|169019625|gb|FE427974.1|FE427974
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAA-GCGCGACACTCTTCCGGCCAAAACTCATCGTGGCTGGAGCC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
EST: gi|169097028|gb|FE498419.1|FE498419
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
EST: gi|169047243|gb|FE456492.1|FE456492
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCTGGAGCC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
EST: gi|169088635|gb|FE491521.1|FE491521
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAAAGCGCGACACTCT
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCT
EST: gi|169087281|gb|FE491694.1|FE491694
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
EST: gi|169030300|gb|FE440025.1|FE440025
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
EST: gi|169102882|gb|FE505247.1|FE505247
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAAAGCGCGACACTCTTCCGGC-AAAACTCATCGTGGCTGGAGCC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
EST: gi|169035576|gb|FE445346.1|FE445346
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCTGGAGCC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
EST: gi|169094800|gb|FE492951.1|FE492951
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
EST: gi|169088706|gb|FE491540.1|FE491540
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAA-GCGCGACACTCTTCCGGCCCAAACTCATCG
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCG
EST: gi|169087447|gb|FE492224.1|FE492224
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCTGGAGCC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
EST: gi|169075799|gb|FE482796.1|FE482796
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCTGGAGCC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
EST: gi|169044083|gb|FE451669.1|FE451669
EST:     CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAG                         CTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC
genomic: CGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCC

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: 114

ACAGATACTAAGAAAATCTCGGCTGTTTCAATCTTTTTTGAAACGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaa ... tcttatccagCTTGAAAAAAGCGCGACACTCTTCCGGCCAAAACTCATCGTGGCCGGAGCCAGCGCCTACTCTCGGCATTATGATTATGCACGAATGCGTCAG




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Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACAGATACTAAGAAAATCTCGGCTGTTTCAATCTTTTTTGAAACGATGCCATATAGGCTGGATGAATCTACAGGTTTTATTGACTACGATCAGgtaaatcgaatagtagaagtctcaaagaacttcgctctttgagactaacctggagtcttatccag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA