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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGAGGGCCCGGAGAGGTGACGGCCCGACGCTTGTCGAGTGTGAGACTTACCGGTATAGAGGCCATTCTCTCGCCGACCCGGACGAGCTCCGGAAGCCTGgtaagttttgttattctcttcgttttttgtggagtttcttctttggttctttcgaggctaagcttttgctcttttttctttctttccag

Basic information

species Selaginella moellendorffii
transcript EFJ29991
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ29991 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: LOC_Os04g02900.1 (Oryza sativa), 5'ss of exon 2
GCGAGGGCCCGGAGAGGTGACGGCCCGACGCTTGTCGAGTGTGAGACTTACCGGTATAGAGGCCATTCTCTCGCCGACCCGGACGAGCTCCGGAAGCCTGgtaagttttgttattctc-ttcgtttttt-gtggagtttcttctttggttctttcgaggctaagcttttgct-cttttttctttctttccag--------
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GAGAGGGCAAGGAGAGGTGAAGGACCGACTCTTGTGGAGTGTGAGACTTACCGGTTCAGAGGGCATTCTCTTGCTGATCCAGATGAGCTCAGGAGACCTGgtaagggtcaccttccttgttcattttttagttcaatggtgtctactaggctaactaaacagagaaatggaaactataaggaaaatattcaggcacttag
















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|169068680|gb|FE477983.1|FE477983
EST:     TCGGTATAGAGGCCATTCTCTCGCCGACCCGGACGAGCTCCGGAAGCCTG                         AGCAAAAGAACAAGTATGCCGTTCGCGATCCCATCGCTGCTTTCAAGAAGT
genomic: CCGGTATAGAGGCCATTCTCTCGCCGACCCGGACGAGCTCCGGAAGCCTGgtaagttttg ... ttctttccagAGCAAAAGAACAAGTATGCTGTTCGCGATCCCATTGCTGCTTTCAAGAAGT
EST: gi|169069941|gb|FE480375.1|FE480375
EST:     CCGGTATAGAGGCCATTCTCTCGCCGACCCGGACGAGCTCCGGAAGCCTG                         AGCAAAAGAACAAGTATGCTGTTCGCGATCCCATTGCTGCTTTCAAGAAGT
genomic: CCGGTATAGAGGCCATTCTCTCGCCGACCCGGACGAGCTCCGGAAGCCTGgtaagttttg ... ttctttccagAGCAAAAGAACAAGTATGCTGTTCGCGATCCCATTGCTGCTTTCAAGAAGT
EST: gi|169022505|gb|FE429389.1|FE429389
EST:     CCGGTATAGAGGCCATTCTCTCGCCGACCCGGACGAGCTCCGGAAGCCTG                         AGCAAAAGAACAAGTATGCTGTTCGCGATCCCATTGCTGCTTTCAAGAAGT
genomic: CCGGTATAGAGGCCATTCTCTCGCCGACCCGGACGAGCTCCGGAAGCCTGgtaagttttg ... ttctttccagAGCAAAAGAACAAGTATGCTGTTCGCGATCCCATTGCTGCTTTCAAGAAGT
EST: gi|169076874|gb|FE485280.1|FE485280
EST:     CCGGTATAGAGGCCATTCTCTCGCCGACCCGGACGAGCTCCGGAAGCCTG                         AGCAAAAGAACAAGTATGCTGTTCGCGATCCCATTGCTGCTTTCAAGAAGT
genomic: CCGGTATAGAGGCCATTCTCTCGCCGACCCGGACGAGCTCCGGAAGCCTGgtaagttttg ... ttctttccagAGCAAAAGAACAAGTATGCTGTTCGCGATCCCATTGCTGCTTTCAAGAAGT
EST: gi|169105100|gb|FE505929.1|FE505929
EST:     CCGGTATAGAGGCCATTCTCTCGCCGACCCGGACGAGCTCCGGAAGCCTG                         AGCAAAAGAACAAGTATGCTGTTCGCGATCCCATTGCTGCTTTCAAGAAGT
genomic: CCGGTATAGAGGCCATTCTCTCGCCGACCCGGACGAGCTCCGGAAGCCTGgtaagttttg ... ttctttccagAGCAAAAGAACAAGTATGCTGTTCGCGATCCCATTGCTGCTTTCAAGAAGT
EST: gi|169035902|gb|FE442370.1|FE442370
EST:     TCGGTATAGAGGCCATTCTCTCGCCGACCCGGACGAGCTCCGGAAGCCTG                         AGCAAAAGAACAAGTATGCCGTTCGCGATCCCATCGCTGCTTTCAAGAAGT
genomic: CCGGTATAGAGGCCATTCTCTCGCCGACCCGGACGAGCTCCGGAAGCCTGgtaagttttg ... ttctttccagAGCAAAAGAACAAGTATGCTGTTCGCGATCCCATTGCTGCTTTCAAGAAGT
EST: gi|169049961|gb|FE458053.1|FE458053
EST:     TCGGTATAGAGGCCATTCTCTCGCCGACCCGGACGAGCTCCGGAAGCCTG                         AGCAAAAGAACAAGTATGCCGTTCGCGATCCCATCGCTGCTTTCAAGAAGT
genomic: CCGGTATAGAGGCCATTCTCTCGCCGACCCGGACGAGCTCCGGAAGCCTGgtaagttttg ... ttctttccagAGCAAAAGAACAAGTATGCTGTTCGCGATCCCATTGCTGCTTTCAAGAAGT
EST: gi|169022506|gb|FE429390.1|FE429390
EST:     CCGGTATAGAGGCCATTCTCTCGCCGACCCGGACGAGCTCCGGAAGCCTG                         AGCAAAAGAACAAGTATGCTGTTCGCGATCCCATTGCTGCTTTCAAGAAGT
genomic: CCGGTATAGAGGCCATTCTCTCGCCGACCCGGACGAGCTCCGGAAGCCTGgtaagttttg ... ttctttccagAGCAAAAGAACAAGTATGCTGTTCGCGATCCCATTGCTGCTTTCAAGAAGT
EST: gi|169033011|gb|FE441345.1|FE441345
EST:     TCGGTATAGAGGCCATTCTCTCGCCGACCCGGACGAGCTCCGGAAGCCTG                         AGCAAAAGAACAAGTATGCCGTTCGCGATCCCATCGCTGCTTTCAAGAAGT
genomic: CCGGTATAGAGGCCATTCTCTCGCCGACCCGGACGAGCTCCGGAAGCCTGgtaagttttg ... ttctttccagAGCAAAAGAACAAGTATGCTGTTCGCGATCCCATTGCTGCTTTCAAGAAGT
EST: gi|169051782|gb|FE458990.1|FE458990
EST:     CGGACGAGCTCCGGAAGCCTG                         AGCAAAAGAACAAGTATGCTGTTCGCGATCCCATTGCTGCTTTCAAGAAGT
genomic: CGGACGAGCTCCGGAAGCCTGgtaagttttg ... ttctttccagAGCAAAAGAACAAGTATGCTGTTCGCGATCCCATTGCTGCTTTCAAGAAGT
EST: gi|169105101|gb|FE505930.1|FE505930
EST:     CCGGTATAGAGGCCATTCTCTCGCCGACCCGGACGAGCTCCGGAAGCCTG                         AGCAAAAGAACAAGTATGCTGTTCGCGATCCCATTGCTGCTTTCAAGAAGT
genomic: CCGGTATAGAGGCCATTCTCTCGCCGACCCGGACGAGCTCCGGAAGCCTGgtaagttttg ... ttctttccagAGCAAAAGAACAAGTATGCTGTTCGCGATCCCATTGCTGCTTTCAAGAAGT

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), 32 (downstream exon)
Score: 22

GCGAGGGCCCGGAGAGGTGACGGCCCGACGCTTGTCGAGTGTGAGACTTACCGGTATAGAGGCCATTCTCTCGCCGACCCGGACGAGCTCCGGAAGCCTGgtaagttttg ... ttctttccagAGCAAAAGAACAAGTATGCTGTTCGCGATCCCATTGCTGCTTTCAAGAAGTACTTGCTGGAGAACGGACTGGCCAGTGAGGCGGACTTGAAAGCCATCGA




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