Closely-Spaced (≥40 bp) and Related (>80% Homology) InvertedAlu Repeats Associated with Known Genes
| Locus ID | Locus description | Indent. (%) | Len. (bp) | Dist. (bp) | Subfamily | ||||||
| 1st | 2nd | ||||||||||
| CD orientation | |||||||||||
| D26607 | Endothelial nitric oxide synthase gene | 81 | 109 | 7 | Sxz | Y | |||||
| Y11950 | PHKG2 gene, exon 16 | 86 | 180 | 13 | Y | Sc | |||||
| X64467 | ALAD gene for porphobilinogen synthase | 82 | 294 | 19 | Jo | Jb | |||||
| AP000113 | GARTand AML related genomic DNA chr 21q21.1 | 83 | 301 | 25 | Sq | Sp | |||||
| AE000658 | T-cell receptor α; and δ; locus | 88 | 131 | 27 | Sp | Sc | |||||
| AE000658 | T-cell receptor α; and δ; locus | 83 | 165 | 28 | Spqxz | Sg | |||||
| L78810 | ADP/ATP carrier protein (ANT 2) gene | 83 | 296 | 28 | Y | Sx | |||||
| U62293 | LIM kinase 1 (LIMK1) | 86 | 264 | 30 | Sz | Sc | |||||
| AF042084 | Heparan glucosaminyl N-deactylase/sulfotransferase | 82 | 298 | 31 | Sx | Sp | |||||
| AJ000673 | CD94 gene (NK cell receptor) exons 4, 5, and 6 | 87 | 311 | 31 | Y | Y | |||||
| D28126 | ATP synthase α; subunit gene | 82 | 298 | 31 | Sp | Sx | |||||
| M90058 | Serglycin gene, exons 1, 2, and 3 | 82 | 301 | 31 | Sp | Sg | |||||
| U63721 | Elastin (ELN) gene, partial cds, and LIMK1 | 84 | 263 | 31 | Sz | Sc | |||||
| AP000114 | GARTand AML-related genomic DNA chr 21q21.1 | 81 | 266 | 32 | Sg | Sc | |||||
| AF030876 | MeCP2 locus, X chromosome | 81 | 306 | 33 | Sx | Sp | |||||
| AF019413 | HLA class II region containing tenascin x (TEN-X) | 81 | 126 | 34 | Sz | Jo | |||||
| Z68226 | Huntington's disease region, cosmid L141A8 | 86 | 306 | 35 | Y | Ya1 | |||||
| L06849 | CD36 (macrophage type B scavenger receptor) gene | 84 | 296 | 35 | Sp | Sq | |||||
| AP000152 | Down's Syndrome Critical Region, chr 21q21.2 | 85 | 311 | 36 | Sx | Sx | |||||
| M31651 | Sex hormone binding globulin (SHBG) gene | 81 | 299 | 37 | Sz | Sp | |||||
| U62293 | LIM kinase 1 (LIMK1) | 81 | 295 | 38 | Y | Sg | |||||
| D87024 | λ DNA for immunoglobulin light chain | 84 | 305 | 39 | Ya1 | Y | |||||
| DC orientation | |||||||||||
| AF060911 | Epithelial sodium channel α; subunit, exon 3 | 83 | 297 | 12 | Sx | Sp | |||||
| AP000116 | GARTand AML related genomic DNA chr 21q21.1 | 82 | 287 | 15 | Sq | Sx | |||||
| AF003529 | Glypican 3 (GPC3) gene | 82 | 212 | 17 | Y | Sg | |||||
| U29953 | Pigment epithelium derived factor gene | 80 | 310 | 17 | Y | Sz | |||||
| U80017 | Basic transcription factor 2 p44 (btf2p44) gene | 83 | 166 | 19 | Sx | Sp | |||||
| U07000 | Breakpoint cluster region (BCR) gene | 80 | 296 | 20 | Sp | Y | |||||
| AP000119 | GART- and AML-related genomic DNA chr 21q21.1 | 82 | 141 | 34 | Sg | Sxzg | |||||
| U80017 | Basic transcription factor 2 p44 (btf2p44) gene | 95 | 311 | 35 | Y | Y | |||||
| AF088219 | Beta (CC) chemokine gene cluster | 84 | 302 | 36 | Sq | Y | |||||
| Z73359 | BRCA2gene region | 81 | 313 | 37 | Sx | Sz | |||||
| M27148 | Alpha 2 plasmin inhibitor allele B | 81 | 194 | 40 | Spqxz | Spqxz | |||||
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↵Clones without a known function are not included. List is sorted according to separation distance. Minimum cutoff values used were >100 bp for length and >80% sequence identity. The maximum separation distance is 40 bp.
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↵The Locus identification (Locus ID) number and description are taken from GenBank.
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↵The percent identity (Ident.) between the two pairedAlu sequences = number of matched nucleotides/alignment length.
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↵The alignment length (Len.) = number of matches + number of mismatches + total gap lengths.
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↵The total separation distance (Dist.) = b + c (see Fig.1).
