Sequence
atgc intronic sequence ATGC exonic sequencegtataacatatgaactacttgtttccttgactaaaagtatttatacagGTGGGCAAAAGAGTCGTGTCGCTTTTGCAAAAATCACATTCAACAAACCACACATTCTTTTACTGGATGAGCCTTCAAATCACCTT
Basic information
species | Selaginella moellendorffii |
transcript | EFJ11792 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ11792 (Selaginella moellendorffii), 3'ss of exon 15
lower sequence: PP1S47_97V6.1 (Physcomitrella patens), 3'ss of exon 15
-------------------------------------------------gtataacatatgaactacttgt-ttccttgactaaaagtatt--tatacagGTGGGCAAAAGAGTCGTGTCGCTTTTGCAAAAATCACATTCAACAAACCACACATTCTTTTACTGGATGAGCCTTCAAATCACCTT
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gttattgaaggattgttggtattttcttaaatttaagcaatctttatcacaattatgtgtcagattgtcatactcttggaatatggatgatgctgtgcagGTGGTCAAAAGAGTAGGGTAGCTTTTGCAAAAATCACTTTCAACAAGCCTCATATATTACTGCTGGATGAGCCATCCAATCACTTGMapped 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|169054404|gb|FE462097.1|FE462097EST: GTTTGGTCTCTCGGGAAACCTGGCGCTTCAAGCCATGTATACTCTATCAG GTGGGCAAAAGAGTCGTGTCGCTTTTGCAAAAATCACATTCAACAAACCAC
genomic: GTTTGGTCTCTCGGGAAACCTGGCGCTTCAAGCCATGTATACTCTATCAGgtataacata ... atttatacagGTGGGCAAAAGAGTCGTGTCGCTTTTGCAAAAATCACATTCAACAAACCAC
EST:
gi|169101065|gb|FE500952.1|FE500952EST: GTTTGGTCTCTCGGGAAACCTGGCGCTTCAAGCCATGTATACTCTATCAG GTGGGCAAAAGAGTCGTGTCGCTTTTGCAAAAATCACATTCAACAAACCAC
genomic: GTTTGGTCTCTCGGGAAACCTGGCGCTTCAAGCCATGTATACTCTATCAGgtataacata ... atttatacagGTGGGCAAAAGAGTCGTGTCGCTTTTGCAAAAATCACATTCAACAAACCAC
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),
25 (downstream exon)
Score:
18GGTGCCCCAGAGCAGAAGATTCGCGCTCACTTGGGTTCGTTTGGTCTCTCGGGAAACCTGGCGCTTCAAGCCATGTATACTCTATCAGgtataacata ... atttatacagGTGGGCAAAAGAGTCGTGTCGCTTTTGCAAAAATCACATTCAACAAACCACACATTCTTTTACTGGATGAGCCTTCAAATCACCTT
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atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtataacatatgaactacttgtttccttgactaaaagtatttatacagGTGGGCAAAAGAGTCGTGTCGCTTTTGCAAAAATCACATTCAACAAACCACACATTCTTTTACTGGATGAGCCTTCAAATCACCTT
gactaaa putative branch site (score: 18)
actaaaagtatttata TA-rich tract