Sequence
atgc intronic sequence ATGC exonic sequenceGATGCACGCAAGGGCGTGCTCTTTGTGGATTTTCCCCCTGTTCTCCAGCTTCAACTCAAGCGGTTTGAATATGATTTTGTGCGAGACACAATGGTTAAGgtaatagcttgaactacgttgtgttggtggatggttcctagttccattcactgaatttgggctgtttattgaacagtgcctaattatgctggcag
Basic information
species | Selaginella moellendorffii |
transcript | EFJ14291 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ18164 (Selaginella moellendorffii), 5'ss of exon 7
lower sequence: LOC_Os01g56490.1 (Oryza sativa), 5'ss of exon 9
GATGCACGCAAGGGCGTGCTCTTTGTGGATTTTCCCCCTGTTCTCCAGCTTCAACTCAAGCGGTTTGAATATGATTTTGTGCGAGACACAATGGTTAAGgtaatagcttgaactacgttgtgttggtggatggttcctag-ttccattcactgaatttgggctgtttattg-aacagtgcctaattatgctggcag------
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GATGCCAAGAAAGGGATGCTTTTTATTGACTTCCCTCCAGTCCTGCAAGTTCAATTAAAGCGGTTTGAATATGATTTTGTGCGGGATACCATGGTTAAGgtctgaaattca-ctctatattttctctggcttgtttctagatttcatctat--gatttatccttttcattgtggcgcttgctaatatttaacataggctaca
upper sequence: EFJ18164 (Selaginella moellendorffii), 5'ss of exon 7
lower sequence: LOC_Os12g30540.1 (Oryza sativa), 5'ss of exon 9
GATGCACGCAAGGGCGTGCTCTTTGTGGATTTTCCCCCTGTTCTCCAGCTTCAACTCAAGCGGTTTGAATATGATTTTGTGCGAGACACAATGGTTAAGgtaatagcttgaac-----tacgttgtgttggtggatggttcctagttccatt-cactgaatttgggctgt-ttattgaacagtgcctaattatgctggcag
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GATGCAAAGAAGGGAGTACTCTTCCTTGATTTCCCTCCTGTTTTGCAACTTCAACTGAAGCGTTTTGAATATGATTACATGCGAGATACAATGGTCAAGgttggaactgtggcacccttacctttaaattctgaagtgtctatatttcctttacatctgtctgtaattatattgttgtcttgtttcaagtagattcctc--
upper sequence: EFJ18164 (Selaginella moellendorffii), 5'ss of exon 7
lower sequence: GRMZM2G014805_T01 (Zea mays), 5'ss of exon 9
GATGCACGCAAGGGCGTGCTCTTTGTGGATTTTCCCCCTGTTCTCCAGCTTCAACTCAAGCGGTTTGAATATGATTTTGTGCGAGACACAATGGTTAAGgtaatagc----ttgaactacgttgtgt---tggtggatggttccta---gttccattcactga--atttgggctgttta---ttgaaca-gtgcctaattatgctggcag
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GATGCAAGGAAAGGTGTGCTTTTCCTTGATTTCCCTCCTGTTTTGCAGCTTCAACTGAAGCGTTTTGAATATGATTACATGCGAGATACAATGGTTAAGgttagaaccgtgctgaataccaccatccaaatgataaaccacttccatacatcttaagaaatggtgaataaggttacccaggattggtgatgatcttatctacttctgcag
upper sequence: EFJ18164 (Selaginella moellendorffii), 5'ss of exon 7
lower sequence: GRMZM2G018508_T03 (Zea mays), 5'ss of exon 6
GATGCACGCAAGGGCGTGCTCTTTGTGGATTTTCCCCCTGTTCTCCAGCTTCAACTCAAGCGGTTTGAATATGATTTTGTGCGAGACACAATGGTTAAGgta-atagct-tgaactacgttgtgttggtggatggttcctagttc-cattcactgaatttgggctgtttattgaacagtgcctaattatgctggcag--
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GATGCAAAGAAAGGAGTTCTTTTTATCGACTTCCCTCCTGTTCTGCAGCTTCAGCTAAAACGTTTTGAATATGATTTCATGCGTGACACGATGGTGAAGgtttgtatcagtgcactaattagttttccttttcatcagtcaatttgctttcaggatttcaaagctctttttcgaggaaaattttagaagccctttttta
upper sequence: EFJ18164 (Selaginella moellendorffii), 5'ss of exon 7
lower sequence: AT3G11910.2 (Arabidopsis thaliana), 5'ss of exon 9
GATGCACGCAAGGGCGTGCTCTTTGTGGATTTTCCCCCTGTTCTCCAGCTTCAACTCAAGCGGTTTGAATATGATTTTGTGCGAGACACAATGGTTAAGgt-aatagcttgaactacgttgtgttggtggatggttcctagttccattcactgaatttgggctgtttattgaacagtgcctaattatgctggcag
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GATGCAAAAAAAGGTGTTCTATTCATAGACTTTCCACCAGTTCTTCAACTTCAGCTCAAGAGGTTTGAATACGATTTTATGAGGGACACAATGGTGAAGgttggtatttgaaattccacttacccagcaaaaaacagcatgt---agtgactgtgtttagacttgattttaagctg-acgttactttctttacag
upper sequence: EFJ18164 (Selaginella moellendorffii), 5'ss of exon 7
lower sequence: Vv06s0009g00960.t01 (Vitis vinifera), 5'ss of exon 9
GATGCACGCAAGGGCGTGCTCTTTGTGGATTTTCCCCCTGTTCTCCAGCTTCAACTCAAGCGGTTTGAATATGATTTTGTGCGAGACACAATGGTTAAGgt-aatagcttgaactacgtt---gtgttggtggatggttcctagttccatt--cactgaatttgggctgtttattgaacagtgcctaattatgctggcag
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GATGCTAGGAAGGGTGTCTTATTCATTGACTTCCCTCCTGTCCTTCAACTTCAGCTGAAGCGATTTGAATATGATTTTATGCGGGACACTATGGTAAAGgtcagcagtctaataaccgttcctgctctattacaaagtgtcctatatcattggtgcatcgcatgaattggcttctttcttattttcatacaaggtgtaa-
upper sequence: EFJ18164 (Selaginella moellendorffii), 5'ss of exon 7
lower sequence: PP1S42_181V6.1 (Physcomitrella patens), 5'ss of exon 9
GATGCACGCAAGGGCGTGCTCTTTGTGGATTTTCCCCCTGTTCTCCAGCTTCAACTCAAGCGGTTTGAATATGATTTTGTGCGAGACACAATGGTTAAGgtaatag--------cttgaactacgttgtgt-tggtggatggttccta-gttccattcactgaatttggg--ctgtttat-tgaacagtgcctaattatgctggcag-----------------------------------------------------------------------------
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GATGCAAAAAAAGGAGTCCTATTTATAGACTTCCCCCCTGTTCTTCAGCTCCAACTGAAACGGTTTGAATACGACTTCATGCGAGACACAATGGTGAAGgtgaggaaaggggttttcgaaccatgcaatatgcaacattcggctggtatagcttatgtattgattgtgcatattatttagatgaaggacgtgtgtgtgtgtgtgtgtgtatttgctttgttttggttggttggtagtcacttttttactactgattacctttgaacattatttatgtgatgcag
upper sequence: EFJ18164 (Selaginella moellendorffii), 5'ss of exon 7
lower sequence: PP1S123_138V6.1 (Physcomitrella patens), 5'ss of exon 9
GATGCACGCAAGGGCGTGCTCTTTGTGGATTTTCCCCCTGTTCTCCAGCTTCAACTCAAGCGGTTTGAATATGATTTTGTGCGAGACACAATGGTTAAGgtaatag------cttgaactacgttgtgttggtggatggttcctagttccattcactgaatttgggct--gtttattgaacagtgcctaattatgctggcag--------------------------
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GATGCGAAAAAAGGAGTCCTATTTATAGACTTCCCCCCTGTTCTTCAGCTACAGTTAAAGCGTTTTGAGTATGACTTTATGCGAGACACAATGGTGAAGgtgaagagattttcttcattctcttcaatttgctgcattgtgttct-tctagcttgttagttctgtatttgatgtattattctgcgtctttttatactgtttgcttcaagcaatatttctgttgtgcagMapped 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|169082131|gb|FE486470.1|FE486470EST: TTCAACTCAAGCGGTTTGAATATGATTTTGTGCGAGACACAATGGTTAAG ATAAACGATCGCTACGAGTTTCCTCTGCAATTGGATTTAGATAGGGAGAAC
genomic: TTCAACTCAAGCGGTTTGAATATGATTTTGTGCGAGACACAATGGTTAAGgtaatagctt ... atgctggcagATAAACGATCGCTACGAGTTTCCTCTGCAATTGGATTTAGATAGGGAGAAC
EST:
gi|169031425|gb|FE437135.1|FE437135EST: TTCAACTCAAGCGGTTTGAATATGATTTTGTGCGAGACACAATGGTTAAG ATAAACGATCGCTACGAGTTTCCTCTGCAATTGGATTTAGATAAGGAGAAC
genomic: TTCAACTCAAGCGGTTTGAATATGATTTTGTGCGAGACACAATGGTTAAGgtaatagctt ... atgctggcagATAAACGATCGCTACGAGTTTCCTCTGCAATTGGATTTAGATAGGGAGAAC
EST:
gi|169032748|gb|FE437775.1|FE437775EST: NNCA-CTCA-GCGGTTTGAATATGATTTTGTGCGAGACACAATGGTTAAG ATAAACGATCGCTACGAGTTTCCTC
genomic: --CAACTCAAGCGGTTTGAATATGATTTTGTGCGAGACACAATGGTTAAGgtaatagctt ... atgctggcagATAAACGATCGCTACGAGTTTCCTC
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),
30 (downstream exon)
Score:
13GATGCACGCAAGGGCGTGCTCTTTGTGGATTTTCCCCCTGTTCTCCAGCTTCAACTCAAGCGGTTTGAATATGATTTTGTGCGAGACACAATGGTTAAGgtaatagctt ... atgctggcagATAAACGATCGCTACGAGTTTCCTCTGCAATTGGATTTAGATAGGGAGAACGGCAAATATTTATCGCCGGATGCCGATAGAGGCGTGAGGAATTTGTACT
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