WormBase Tree Display for Sequence: R07A4
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| R07A4 | DNA | R07A4 | 36711 | ||
|---|---|---|---|---|---|
| SMap | S_child (11) | ||||
| Structure | From | Source | CHROMOSOME_X | ||
| Overlap_right | T05A10 | 28912 | |||
| Overlap_left | T01C1 | ||||
| Clone_left_end | R07A4 | 1 | |||
| Clone_right_end | T01C1 | 9630 | |||
| R07A4 | 36711 | ||||
| DB_info | Database | EMBL | NDB_AC | Z67756 | |
| NDB_SV | Z67756.1 | ||||
| DB_remark | Due to the repetitive nature of the region 10791..12245 sequencing in this region has proven problematic. This region consists of copies of a 214bp repeat and a 149bp repeat. There is also some evidence that the cosmid has become deleted and therefore the size of this region may differ from that in the genome. | ||||
| Keyword | HTG | ||||
| EMBL_dump_info | EMBL_dump_method | worm_EMBL-dump | |||
| Origin | From_author | Cottage A | |||
| From_laboratory | HX | ||||
| Date_directory | 950523 | ||||
| Species | Caenorhabditis elegans | ||||
| Strain | WBStrain00000001 | ||||
| Visible | Clone | R07A4 | |||
| Reference | WBPaper00015401 | ||||
| WBPaper00022798 | |||||
| Properties | Genomic_canonical | ||||
| Checksum | MD5 | 83050b2c5d1925cf02ed04417fb73773 | |||
| Status | Finished | 23 May 1995 00:00:00 | |||
| Submitted | 11 Nov 1995 00:00:00 | ||||
| Annotated | 10 Nov 1995 00:00:00 | ||||
| Map | Sequence-X | Ends | Left | 5754 | |
| Right | 5776 | ||||
| Interpolated_map_position | X | 2.45448 | |||
| Assembly_tags | annotation | 1 | 6 | This is the start of R07A4 it has been impossible to finish this cosmid due to the large repeat section in the middle and due to the nature of the repeat i.e. one base difference in some repeats. Also there is evidence from the restriction digest that some deletion is occuring during growth. | |
| 10791 | 10794 | Start of first complete repeat segment preceded by defective partial repeats. Repeats of 214 and 149 type. | |||
| 11665 | 11668 | Break contig at TCCC and insert 20 copies of 214 base repeat ( possibly one 149 also ) 214 repeat consensus : TCCCAGTAGGTGCCAGAAGCTCCGAGCAGTTACAGAAAACCTACAGTACCTTTGTGCGTATTTTATTATTAAATGAAAACGACCATTTATAGGCAAAATAGGTAAATTTATGAAACTTTGAAAATTCCCAAATCACTTCAAACCAACTTTTTTTGAAATTTCTTTCAGAAACTTTGTTGCAAATTCCAAGCTTTTTCAGAATTTACCAACAACA Consensus of 149 repeat : TCCCAGTAGGTGCCAGAAGCTCCGAGCAGTTACAGAAAACCTACAGTACCTTTGTGCGTATTTTATTATTAAATGAAAACGACCATTCATAGGCATCTTTCAGAAACTTTGTTGCAAATTCCAAGCTTTTTCAGAATTTACCAACAACA | |||
| 12242 | 12245 | Return to main contig here ( One more 214 repeat , also an incomplete repeat and then unique ) | |||
| 12584 | 12593 | last bases of repeat | |||
| Clone left end | 1 | 6 | This is the clone left end of R07A4 This is the start of R07A4 it has been impossible to finish this cosmid due to the large repeat section in the middle and due to the nature of the repeat i.e. one base difference in some repeats. Also there is evidence from the restriction digest that some deletion is occuring during growth | ||
| 36706 | 36711 | This is the clone left end of R07A4 . | |||
| Clone right end | 9627 | 9630 | this is the clone right end of T01C1 | ||
| Method | Genomic_canonical |
