Examples of dog cDNAs that terminate with a bimorphic SINEC_Cf (+) sequence
|
|
SINEC_Cf(+) |
GGGATCC..167..AAAAA |
Ensembl gene prediction |
|---|---|---|---|
| 1 | BI817000(+) | 1-101-CCATTAGAGGATATAAAGAAGGGATCC..174..AAAAA-307 | ENSCAFG00000016640 (+) |
| Cfa6 | 18637451-18637551-CCATTAGAGGATATAAAGAAgattgct | ||
| 2 | BQ234215(+) | 9-251-CAGAGGGTTAAAATGCTTCAGGGATCC..160..AATAA-443 | ENSCAFG00000010152 (+) |
| Cfa21 | 49587244-49587487-CAGAGGGTTAAAATGCTTCAaattgtc | ||
| 3 | CK997864(–) | 1-372-TCAGCTGGTAGGAATGAATTGGGATCC..156..TAAAA-564 | – |
| Cfa31 | 20121516-20121868-TCAGCTGGTAGGAATGAATatggatat | ||
| 4 | BQ233944(+) | 10-237-GTGTTAGAACTCCATCAACAGGGATCC..176..AAAAA-445 | ENSCAFG00000013709 (+) |
|
|
Cfa17
|
66653098-66653326-GTGTTAGAACTCCATCAACAttttccc
|
|
-
The termini of the consensus SINEC_Cf (+) sequence is included for comparison. For examples 1–4, the GenBank accession numbers (and orientations) refer to dog ESTs [e.g., BI817000 (+)] that can be aligned with specific chromosomal regions of CanFam1. The nucleotide identity between the EST and genomic sequences is terminated by a SINEC_Cf sequence at the 3′-end of the cDNA sequence. These are all examples of transcribed SINEC_Cf insertions that are bimorphic in the dog population. Three of the four examples map within introns of putative genes in the (+) orientation (Ensembl annotation).
