Sequence
atgc intronic sequence ATGC exonic sequenceGATCATCCAAGAGCAAATCACGAGAGTTTTGCTGGAAAGGCTCATCGTCAACCGTCCTCATCCGTGGGGTCTGCTCATCACTTTCATCGAGCTAATCAAGgtatgggggagatctttgtccctcctttcttctttctccttttcgttggaaatatctctcaccacgctccctttatctcgcgcag
Basic information
species | Selaginella moellendorffii |
transcript | EFJ31209 |
intron # | 39 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ31209 (Selaginella moellendorffii), 5'ss of exon 39
lower sequence: GLYMA07G14770.1 (Glycine max), 5'ss of exon 51
GATCATCCAAGAGCAAATCACGAGAGTTTTGCTGGAAAGGCTCATCGTCAACCGTCCTCATCCGTGGGGTCTGCTCATCACTTTCATCGAGCTAATCAAGgtatgggggagatctttgtc-cctcctttcttctttctccttttcgttggaaatatctctcacca--cgctccctttatctcgcgcag---------------------------------
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AGTTATCCAAGAACAAATTACTAGAGTCTTGTTAGAACGCCTAATTGTTAACCGTCCTCATCCCTGGGGTCTCCTCATTACTTTTATTGAGCTGATCAAGgtacattctttattttgctcgtgtaattttctctttttgatacagattatgggtatccttcacaggttattaaccaaatctcttttcttttctctctgcaatttttctttttgtttgccag
upper sequence: EFJ31209 (Selaginella moellendorffii), 5'ss of exon 39
lower sequence: GLYMA03G27270.1 (Glycine max), 5'ss of exon 51
GATCATCCAAGAGCAAATCACGAGAGTTTTGCTGGAAAGGCTCATCGTCAACCGTCCTCATCCGTGGGGTCTGCTCATCACTTTCATCGAGCTAATCAAGgtatgggggagatctttgtccc-tcctttcttctttctccttttcgttggaaatatctctcacca--cgctccctttatctcgcgcag-------------------------------
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AGTTATCCAAGAACAAATTACTAGAGTCTTGTTAGAACGCCTAATTGTTAACCGTCCTCATCCCTGGGGTCTCCTCATTACTTTTATTGAGCTGATTAAGgtatattctttattttgcttgtgtaattttctcgttttgatacagattatgggtatcctccacaggttactaaccaaatctcttattttctctatgcaatttttcttgtcttttgccag
upper sequence: EFJ31209 (Selaginella moellendorffii), 5'ss of exon 39
lower sequence: EDP03769 (Chlamydomonas reinhardtii), 5'ss of exon 12
GATCATCCAAGAGCAAATCACGAGAGTTTTGCTGGAAAGGCTCATCGTCAACCGTCCTCATCCGTGGGGTCTGCTCATCACTTTCATCGAGCTAATCAAGgtatgggggagatc-tttgtccctcctttcttctttctccttttcgttggaaatatctctcaccacgctccctttatctcgcgcag------------------------------------------------------------------
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-----TGAAGGAGCAGATCACGCGCACGCTGCTGGAGCGGCTGATCGTGAACCGGCCGCACCCCTGGGGCCTGCTCATCACCTTCATCGAGCTCATCAAGA-ACAGgtgagcccacgtgtgcctgcagtaatagggatgcgaccatcggcatatccgtgcctaagcatgccctgcagcgtctgtaaaagtttacgcctagtccaatttagcacacgcctcatcaacccctggccgtgtgcgtccactcgcag
upper sequence: EFJ31209 (Selaginella moellendorffii), 5'ss of exon 39
lower sequence: PP1S85_31V6.1 (Physcomitrella patens), 5'ss of exon 50
GATCATCCAAGAGCAAATCACGAGAGTTTTGCTGGAAAGGCTCATCGTCAACCGTCCTCATCCGTGGGGTCTGCTCATCACTTTCATCGAGCTAATCAAGgtatgggggagatctttgtccctcctttcttctt--------tctccttttcgttggaaatatctctcaccacgctccctttatctcgcgcag----------------------------------------------------------------------
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AATTATTCAAGAGCAAATCACCAGGGTGTTGCTTGAAAGGCTCATTGTGAATAGACCACATCCTTGGGGTCTGCTGATCACCTTCATAGAACTTATCAAGgtaatctacttctatctaatcccattgcgctctcaaaggtgctatcttagttgtgagaaaaggactagattctgtgtcattgttttcgttctttatctgcaacaagcgtttccctttgatatatacttgctaaggttattcatgcctagtgctggctttgcagMapped 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|169021325|gb|FE431116.1|FE431116EST: ACCGTCCTCATCCGTGGGGTCTGCTCATCACTTTCATCGAGCTAATCAAG AATCCCCGCTACAACTTTTGGAACCACGCATTCGTGCGATGCGCTCCGGAG
genomic: ACCGTCCTCATCCGTGGGGTCTGCTCATCACTTTCATCGAGCTAATCAAGgtatggggga ... tctcgcgcagAATCCCCGCTACAACTTTTGGAACCACGCATTCGTGCGATGCGCTCCGGAG
EST:
gi|169111515|gb|FE510375.1|FE510375EST: ACCGTCCTCATCCGTGGGGTCTGCTCATCACTTTCATCGAGCTAATCAAG AATCCCCGCTACAACTTTTGGAACCACGCATTCGTGCGATGCGCTCCGGAG
genomic: ACCGTCCTCATCCGTGGGGTCTGCTCATCACTTTCATCGAGCTAATCAAGgtatggggga ... tctcgcgcagAATCCCCGCTACAACTTTTGGAACCACGCATTCGTGCGATGCGCTCCGGAG
EST:
gi|169111514|gb|FE510374.1|FE510374EST: ACCGTCCTCATCCGTGGGGTCTGCTCATCACTTTCATCGAGCTAATCAAG AATCCCCGCTACAACTTTTGGAACCACGCATTCGTGCGATGCGCTCCGGAG
genomic: ACCGTCCTCATCCGTGGGGTCTGCTCATCACTTTCATCGAGCTAATCAAGgtatggggga ... tctcgcgcagAATCCCCGCTACAACTTTTGGAACCACGCATTCGTGCGATGCGCTCCGGAG
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),
35 (downstream exon)
Score:
14GATCATCCAAGAGCAAATCACGAGAGTTTTGCTGGAAAGGCTCATCGTCAACCGTCCTCATCCGTGGGGTCTGCTCATCACTTTCATCGAGCTAATCAAGgtatggggga ... tctcgcgcagAATCCCCGCTACAACTTTTGGAACCACGCATTCGTGCGATGCGCTCCGGAGATCGACAGGCTGTTTGAATCGGTCGCGAGATCTTGCATGGGACCACCGG
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