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| Gene | GeneID | Cytoband | Start Position (bp) | End Position (bp) | Size (bp) | Status | Description |
| C3orf32 | 51066 | 3p26.1 | 8661317 | 8693737 | 32420 | PREDICTED | chromosome 3 open reading frame 32 |
| CYCSP10 | 360166 | 3p25.3 | 10042324 | 10042631 | 307 | INFERRED | cytochrome c, somatic pseudogene 10 |
| CYCSP12 | 360168 | 3p25.2 | 11920291 | 11920594 | 303 | INFERRED | cytochrome c, somatic pseudogene 12 |
| HMGN2P7 | 644498 | 3p25.1 | 15415760 | 15417267 | 1507 | INFERRED | high mobility group nucleosomal binding domain 2 pseudogene 7 |
| IMPDH1P8 | 131961 | 3p25.1 | 15919457 | 15921802 | 2345 | INFERRED | IMP (inosine monophosphate) dehydrogenase 1 pseudogene 8 |
| KRT18P17 | 344866 | 3p25.2 | 12828834 | 12830219 | 1385 | INFERRED | keratin 18 pseudogene 17 |
| LOC100128342 | 100128342 | 3p24.3 | 15503554 | 15505252 | 1698 | MODEL | hypothetical LOC100128342 |
| LOC100128644 | 100128644 | 3p25.1 | 12948885 | 12949492 | 607 | MODEL | LMNE6487 |
| LOC100128772 | 100128772 | 3p25.1 | 13501791 | 13514100 | 12309 | MODEL | proline-rich protein 3-like |
| LOC100129480 | 100129480 | 3p25.2 | 12578980 | 12583432 | 4452 | MODEL | hypothetical protein LOC100129480 |
| LOC100129618 | 100129618 | 3p24.3 | 16316572 | 16317546 | 974 | MODEL | THAP domain-containing protein 5-like |
| LOC100129929 | 100129929 | 3p25.2 | 11941485 | 11942719 | 1234 | INFERRED | nucleoporin 210kDa pseudogene |
| LOC100130207 | 100130207 | 3p26.2 | 3782694 | 3832392 | 49698 | NA | hypothetical LOC100130207 |
| LOC100132260 | 100132260 | 3p24.3 | 16734255 | 16734939 | 684 | INFERRED | chromodomain protein, Y-like pseudogene |
| LOC100133039 | 100133039 | 3p25.2 | 11602886 | 11605949 | 3063 | MODEL | hypothetical LOC100133039 |
| LOC100287512 | 100287512 | 3p25.1 | 15182863 | 15183711 | 848 | INFERRED | ribosomal protein S3A pseudogene |
| LOC100288506 | 100288506 | 3p26.1 | 4024407 | 4025979 | 1572 | INFERRED | polyribonucleotide nucleotidyltransferase pseudogene |
| LOC100288831 | 100288831 | 3p25.3 | 9258579 | 9260213 | 1634 | MODEL | hypothetical LOC100288831 |
| LOC100293612 | 100293612 | - | 13689246 | 13695947 | 6701 | MODEL | hypothetical LOC100293612 |
| LOC100418921 | 100418921 | - | 12111725 | 12112860 | 1135 | INFERRED | actin, gamma 1 pseudogene |
| LOC100419599 | 100419599 | - | 5110312 | 5110926 | 614 | INFERRED | ring finger protein 10 pseudogene |
| LOC100421239 | 100421239 | - | 10034558 | 10036007 | 1449 | INFERRED | Fanconi anemia, complementation group D2 pseudogene |
| LOC100421503 | 100421503 | - | 12898813 | 12900185 | 1372 | INFERRED | MAP/microtubule affinity-regulating kinase 3 pseudogene |
| LOC100421504 | 100421504 | - | 12902186 | 12903749 | 1563 | INFERRED | MAP/microtubule affinity-regulating kinase 4 pseudogene |
| LOC100421505 | 100421505 | - | 12903916 | 12905103 | 1187 | INFERRED | MAP/microtubule affinity-regulating kinase 4 pseudogene |
| LOC100505557 | 100505557 | - | 12299393 | 12299953 | 560 | MODEL | glutathione S-transferase Mu 1-like |
| LOC100505641 | 100505641 | - | 14984287 | 14989400 | 5113 | MODEL | hypothetical LOC100505641 |
| LOC100505673 | 100505673 | - | 14961857 | 14989931 | 28074 | MODEL | hypothetical LOC100505673 |
| LOC100505696 | 100505696 | 3p25-p24 | 15295159 | 15305995 | 10836 | MODEL | hypothetical LOC100505696 |
| LOC100505737 | 100505737 | - | 15676947 | 15683820 | 6873 | MODEL | hypothetical LOC100505737 |
| LOC100507223 | 100507223 | - | 11951078 | 11952239 | 1161 | MODEL | hypothetical LOC100507223 |
| LOC100507273 | 100507273 | - | 15186187 | 15206765 | 20578 | MODEL | collagen alpha-4(VI) chain-like |
| LOC100507529 | 100507529 | - | 2403942 | 2404416 | 474 | MODEL | histidine triad nucleotide-binding protein 2, mitochondrial-like |
| LOC100507555 | 100507555 | - | 3842005 | 3842679 | 674 | MODEL | hypothetical LOC100507555 |
| LOC100507601 | 100507601 | - | 6673245 | 6847136 | 173891 | MODEL | hypothetical LOC100507601 |
| LOC100507618 | 100507618 | - | 9435634 | 9438752 | 3118 | MODEL | putative uncharacterized protein FLJ46541-like |
| LOC100507660 | 100507660 | - | 9234219 | 9236137 | 1918 | MODEL | hypothetical LOC100507660 |
| LOC131973 | 131973 | 3p25.1 | 14614359 | 14616299 | 1940 | INFERRED | rhomboid 5 homolog 1 (Drosophila) pseudogene |
| LOC285370 | 285370 | 3p25.3 | 10801169 | 10805877 | 4708 | PREDICTED | hypothetical LOC285370 |
| LOC285375 | 285375 | 3p25.1 | 13692221 | 13788132 | 95911 | PREDICTED | hypothetical LOC285375 |
| LOC391508 | 391508 | 3p25.3 | 9390127 | 9390873 | 746 | INFERRED | phosphoglycerate mutase 1 (brain) pseudogene |
| LOC401052 | 401052 | 3p25.3 | 10048102 | 10052779 | 4677 | PREDICTED | hypothetical LOC401052 |
| LOC442075 | 442075 | 3p25.3 | 10028595 | 10046944 | 18349 | MODEL | hypothetical LOC442075 |
| LOC642891 | 642891 | 3p26.3 | 237441 | 239090 | 1649 | MODEL | hypothetical protein LOC642891 |
| LOC643182 | 643182 | 3p26.1 | 5121263 | 5126193 | 4930 | INFERRED | upstream binding transcription factor, RNA polymerase I pseudogene |
| LOC643459 | 643459 | 3p25.3 | 9643378 | 9644409 | 1031 | INFERRED | dual specificity phosphatase 5 pseudogene |
| LOC728143 | 728143 | 3p25.3 | 11275939 | 11276366 | 427 | MODEL | mitochondrial intermembrane space import and assembly protein 40-like |
| LOH3CR2A | 29931 | 3p25.3 | 8613468 | 8615580 | 2112 | PREDICTED | loss of heterozygosity, 3, chromosomal region 2, gene A |
| MARK2P1 | 100421501 | - | 9896589 | 9897216 | 627 | INFERRED | MAP/microtubule affinity-regulating kinase 2 pseudogene 1 |
| MARK2P2 | 100421502 | - | 10054068 | 10054817 | 749 | INFERRED | MAP/microtubule affinity-regulating kinase 2 pseudogene 2 |
| MRPS35P1 | 339910 | 3p25.3 | 5488662 | 5488789 | 127 | INFERRED | mitochondrial ribosomal protein S35 pseudogene 1 |
| MRPS36P1 | 347705 | 3p25.3 | 6814724 | 6815033 | 309 | INFERRED | mitochondrial ribosomal protein S36 pseudogene 1 |
| OR7E122P | 81428 | 3p25.3 | 8729920 | 8730840 | 920 | INFERRED | olfactory receptor, family 7, subfamily E, member 122 pseudogene |
| RPL21P17 | 727810 | 3p26.3 | 1947332 | 1947853 | 521 | INFERRED | ribosomal protein L21 pseudogene 17 |
| RPL23AP38 | 391504 | 3p26.3 | 1637421 | 1637929 | 508 | INFERRED | ribosomal protein L23a pseudogene 38 |
| RPL23AP39 | 100271461 | 3p26.3 | 1771738 | 1772158 | 420 | INFERRED | ribosomal protein L23a pseudogene 39 |
| RPL39P17 | 100271024 | 3p25.1 | 13094274 | 13094682 | 408 | INFERRED | ribosomal protein L39 pseudogene 17 |
| RPS24P10 | 100271097 | 3p25 | 15173343 | 15173710 | 367 | INFERRED | ribosomal protein S24 pseudogene 10 |
| RPS8P6 | 100270871 | 3p26.1 | 350400 | 351002 | 602 | INFERRED | ribosomal protein S8 pseudogene 6 |
| RPSAP32 | 402123 | 3p26.3 | 659472 | 660040 | 568 | INFERRED | ribosomal protein SA pseudogene 32 |
| TRNASUP4P | 100189442 | 3p25.1 | 13833886 | 13833953 | 67 | INFERRED | transfer RNA suppressor 4 (anticodon CUA) pseudogene |
| VN1R20P | 100312775 | 3p25.1 | 13968358 | 13969257 | 899 | INFERRED | vomeronasal 1 receptor 20 pseudogene |
| VN1R21P | 100128368 | 3p25.1 | 14130553 | 14131358 | 805 | INFERRED | vomeronasal 1 receptor 21 pseudogene |