Sequence
atgc intronic sequence ATGC exonic sequenceGAAGTACTCCAATGCATACATGCTTGTATATATCAGAGAGAGCGATAAGGACAAGGTTATCTGCAATGTAGACGTGAAAGATATTGCTGAGCACTTGCAGgtaatatttttcggtgttttttggtggagtaacagttcgttctcttttccttttag
Basic information
species | Selaginella moellendorffii |
transcript | EFJ13603 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ13603 (Selaginella moellendorffii), 5'ss of exon 12
lower sequence: AT5G06600.3 (Arabidopsis thaliana), 5'ss of exon 13
GAAGTACTCCAATGCATACATGCTTGTATATATCAGAGAGAGCGATAAGGACAAGGTTATCTGCAATGTAGACGTGAAAGATATTGCTGAGCACTTGCAGgtaa--tatttttcggtgtttt-ttggtggagtaacagttcgttctcttttccttttag------------------
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AAAGTACTCGAATGCTTACATGCTTGTATATATCCGAGAAAGTGACAAAGATAAAATAATCTGCAACGTTGATGAGAAAGACATAGCAGAACATTTAAGGgtaaaatattttcgggcattttcttagtagtttatttgcgtcttggttttacctgatcgttcattacattttgacag
upper sequence: EFJ13603 (Selaginella moellendorffii), 5'ss of exon 12
lower sequence: PP1S123_138V6.1 (Physcomitrella patens), 5'ss of exon 13
GAAGTACTCCAATGCATACATGCTTGTATATATCAGAGAGAGCGATAAGGACAAGGTTATCTGCAATGTAGACGTGAAAGATATTGCTGAGCACTTGCAGgtaatattt-------------ttcggtgttttttggtggagtaacagttcgttctct----tttccttttag---------------------------
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AAAATACTCAAACGCATACATGTTGGTGTATATCAGAGAGGCCGACAAGGACAAGATTGTTTGCAATGTGGATGAGAAGGATATTGCAGAACATTTGCAGgtaatttaagaaactggtgaaactagttattcctttcaggtgtgtctgtttgctctatgtaattcggtattaaactcggcgttgagaactgccagtattgMapped 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|169080636|gb|FE490966.1|FE490966EST: ACAAGGTTATCTGCAATGTAGACGTGAAAGATATTGCTGAGCACTTGCAG GTGCGCTTGAAGAAAGAGCACGAAGAGAAAGAACGGAAACGGAAGGAGAAA
genomic: ACAAGGTTATCTGCAATGTAGACGTGAAAGATATTGCTGAGCACTTGCAGgtaatatttt ... ttccttttagGTGCGCTTGAAGAAAGAGCACGAAGAGAAAGAACGGAAACGGAAGGAGAAA
EST:
gi|169082562|gb|FE489059.1|FE489059EST: ACAAGGTTATCTGCAATGTAGACGTGAAAGATATTGCTGAGCACTTGCAG GTGCGCTTGAAGAAAGAGCACGAAGAGAAAGAACGGAAACGGAAGGAGAAA
genomic: ACAAGGTTATCTGCAATGTAGACGTGAAAGATATTGCTGAGCACTTGCAGgtaatatttt ... ttccttttagGTGCGCTTGAAGAAAGAGCACGAAGAGAAAGAACGGAAACGGAAGGAGAAA
EST:
gi|169030356|gb|FE440081.1|FE440081EST: ACAAGGTTATCTGCAATGTAGACGTGAAAGATATTGCTGAGCACTTGCAG GTGCGCTTGAAGAAAGAGCACGAAGAGAAAGAACGGAAACGGAAGGAGAAA
genomic: ACAAGGTTATCTGCAATGTAGACGTGAAAGATATTGCTGAGCACTTGCAGgtaatatttt ... ttccttttagGTGCGCTTGAAGAAAGAGCACGAAGAGAAAGAACGGAAACGGAAGGAGAAA
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),
29 (downstream exon)
Score:
15GAAGTACTCCAATGCATACATGCTTGTATATATCAGAGAGAGCGATAAGGACAAGGTTATCTGCAATGTAGACGTGAAAGATATTGCTGAGCACTTGCAGgtaatatttt ... ttccttttagGTGCGCTTGAAGAAAGAGCACGAAGAGAAAGAACGGAAACGGAAGGAGAAAGCCGAGGCTCATCTGTATACAGTAATCAAG
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