Sequence
atgc intronic sequence ATGC exonic sequencegtaagttcttcctgctgcatctggagaactaagtgctagtttgattctcattttccaagGTCCGGAACACCCGAAGTTTCAATAGAATGGGCCAGCTGACGGGCTACAAGCTTGTTCCAGGCTCGAATTGCCTACCCCTCGTAGGCGAGAACGCTATGA
Basic information
species | Selaginella moellendorffii |
transcript | EFJ21207 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ21207 (Selaginella moellendorffii), 3'ss of exon 9
lower sequence: PP1S9_129V6.2 (Physcomitrella patens), 3'ss of exon 4
-------------------------------------gtaagttcttcctgctgca-tctggagaactaagtg--ctagtttgattctcattttcca-agGTCCGGAACACCCGAAGTTTCAATAGAATGGGCCAGCTGACGGGCTACAAGCTTGTTCCAGGCTCGAATTGCCTACCCCTCGTAGGCGAGAACGCTATGA
| || | | | || | |||| || | | || || | ||||| |||| || ||||| | | |||||| ||| || || || ||||||||||||||||| |||||||| ||||| ||||| || | || |||| | |
tcagagtttgagaatctgtcattatttttggcggatcgaaacctgacattagtaggctcagcagaaataggaaaagcacttagaagttaattttttgtagGTTCGAAACACAAGGACATTCAATCGAACAGGGCATCTCACGGGCTACAAGCTTGTGCCAGGCTCCAATTGTCTACCACTTGCTGGTCCAGACGCGAAGTMapped 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|169045268|gb|FE453581.1|FE453581EST: AGTTACAGGCTCAGCGAGACTGCAACTCTCTCTCCGCTCGCCATTGGATT GTCCGGAACACCCGAAGTTTCAATAGAATGGGCCAGCTGACGGGCTACAAG
genomic: AGTTACAGGCTCAGCGAGACTGCAACTCTCTCTCCGCTCGCCATTGGATTgtaagttctt ... attttccaagGTCCGGAACACCCGAAGTTTCAATAGAATGGGCCAGCTGACGGGCTACAAG
EST:
gi|169092718|gb|FE493686.1|FE493686EST: TTACAGGCTCAGCGAGACTGCAACCCTCTCNTC-GCTCNGC-ATTGGATT GTCCGGAACACCCGAAGTTTCA-TAGAATGGGCCAGCTGACGGGCTAC
genomic: TTACAGGCTCAGCGAGACTGCAACTCTCTC-TCCGCTC-GCCATTGGATTgtaagttctt ... attttccaagGTCCGGAACACCCGAAGTTTCAATAGAATGGGCCAGCTGACGGGCTAC
EST:
gi|169045269|gb|FE453582.1|FE453582EST: AGTTACAGGCTCAGCGAGACTGCAACTCTCTCTCCGCTCGCCATTGGATT GTCCGGAACACCCGAAGTTTCAATAGAATGGGCCAGCTGACGGGCTACAAG
genomic: AGTTACAGGCTCAGCGAGACTGCAACTCTCTCTCCGCTCGCCATTGGATTgtaagttctt ... attttccaagGTCCGGAACACCCGAAGTTTCAATAGAATGGGCCAGCTGACGGGCTACAAG
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:
33 (upstream exon),
31 (downstream exon)
Score:
7CAATCCTCACAATAACTCGTTCTACCCGACCGAGACTGTGCTAAAGTCTGAGTTACAGGCTCAGCGAGACTGCAACTCTCTCTCCGCTCGCCATTGGATTgtaagttctt ... attttccaagGTCCGGAACACCCGAAGTTTCAATAGAATGGGCCAGCTGACGGGCTACAAGCTTGTTCCAGGCTCGAATTGCCTACCCCTCGTAGGCGAGAACGCTATGA
<
<
<
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttcttcctgctgcatctggagaactaagtgctagtttgattctcattttccaagGTCCGGAACACCCGAAGTTTCAATAGAATGGGCCAGCTGACGGGCTACAAGCTTGTTCCAGGCTCGAATTGCCTACCCCTCGTAGGCGAGAACGCTATGA
gtttgat putative branch site (score: 7)
ttctcattttcc CT-rich tract
tttgatt TA-rich tract