| Hoxa3 | P02831 | Gm25750-201 | ENSMUST00000175483 | 112 nt | BASIC | 1.69 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Mir9-2-201 | ENSMUST00000083490 | 72 nt | BASIC | 1.69 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm10730-201 | ENSMUST00000194097 | 2723 nt | BASIC | 1.68 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm24098-201 | ENSMUST00000102075 | 109 nt | BASIC | 1.68 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm25381-201 | ENSMUST00000102078 | 109 nt | BASIC | 1.68 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm23469-201 | ENSMUST00000157131 | 104 nt | BASIC | 1.68 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm23172-201 | ENSMUST00000157160 | 124 nt | BASIC | 1.68 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm25060-201 | ENSMUST00000157374 | 130 nt | BASIC | 1.68 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm25460-201 | ENSMUST00000157954 | 127 nt | BASIC | 1.68 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm24000-201 | ENSMUST00000158063 | 89 nt | BASIC | 1.68 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Sprr2c-ps-201 | ENSMUST00000195581 | 301 nt | BASIC | 1.68 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Mir7021-201 | ENSMUST00000197026 | 63 nt | BASIC | 1.68 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm44308-201 | ENSMUST00000197080 | 99 nt | BASIC | 1.68 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Olfr1007-ps1-201 | ENSMUST00000217468 | 138 nt | BASIC | 1.68 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm25636-201 | ENSMUST00000082666 | 133 nt | BASIC | 1.68 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Mir19b-2-201 | ENSMUST00000083539 | 84 nt | BASIC | 1.68 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm18795-202 | ENSMUST00000223373 | 2920 nt | BASIC | 1.68 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Olfr790-203 | ENSMUST00000215067 | 2659 nt | APPRIS P1 TSL 5 BASIC | 1.68 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm16328-201 | ENSMUST00000126985 | 196 nt | BASIC | 1.67 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm45886-201 | ENSMUST00000148141 | 342 nt | TSL 5 BASIC | 1.67 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm15692-201 | ENSMUST00000152173 | 352 nt | BASIC | 1.67 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm25364-201 | ENSMUST00000158851 | 107 nt | BASIC | 1.67 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm24177-201 | ENSMUST00000158927 | 131 nt | BASIC | 1.67 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm26073-201 | ENSMUST00000179906 | 127 nt | BASIC | 1.67 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm25797-201 | ENSMUST00000082640 | 107 nt | BASIC | 1.67 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Snora20-201 | ENSMUST00000082703 | 128 nt | BASIC | 1.67 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm24805-201 | ENSMUST00000082931 | 104 nt | BASIC | 1.67 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm22576-201 | ENSMUST00000083733 | 104 nt | BASIC | 1.67 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm24449-201 | ENSMUST00000083985 | 106 nt | BASIC | 1.67 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | G2e3-203 | ENSMUST00000121521 | 2594 nt | APPRIS ALT2 TSL 1 (best) BASIC | 1.67 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | 4930522L14Rik-202 | ENSMUST00000112547 | 2001 nt | APPRIS P1 TSL 5 BASIC | 1.66 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Mir758-201 | ENSMUST00000103260 | 81 nt | BASIC | 1.66 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm26420-201 | ENSMUST00000104273 | 103 nt | BASIC | 1.66 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm23859-201 | ENSMUST00000158383 | 64 nt | BASIC | 1.66 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Mir669n-201 | ENSMUST00000158636 | 54 nt | BASIC | 1.66 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm25730-201 | ENSMUST00000178753 | 165 nt | BASIC | 1.66 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm27792-201 | ENSMUST00000184031 | 115 nt | BASIC | 1.66 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm43898-201 | ENSMUST00000204456 | 424 nt | BASIC | 1.66 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | AC125488.1-201 | ENSMUST00000219586 | 212 nt | BASIC | 1.66 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Mir489-201 | ENSMUST00000093599 | 107 nt | BASIC | 1.66 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Olfr921-202 | ENSMUST00000213958 | 4012 nt | APPRIS P1 TSL 2 BASIC | 1.66 | □□□□□ -2.14 | | |
| Hoxa3 | P02831 | Gm23109-201 | ENSMUST00000116867 | 126 nt | BASIC | 1.65 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm14626-201 | ENSMUST00000117619 | 216 nt | BASIC | 1.65 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm24478-201 | ENSMUST00000157439 | 158 nt | BASIC | 1.65 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm42855-201 | ENSMUST00000197388 | 253 nt | BASIC | 1.65 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm44408-201 | ENSMUST00000200205 | 66 nt | BASIC | 1.65 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm45471-201 | ENSMUST00000211270 | 281 nt | BASIC | 1.65 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | AC153512.4-201 | ENSMUST00000217783 | 426 nt | TSL 3 BASIC | 1.65 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | AC124739.2-201 | ENSMUST00000222201 | 109 nt | BASIC | 1.65 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm22683-201 | ENSMUST00000082854 | 137 nt | BASIC | 1.65 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Mirlet7c-1-201 | ENSMUST00000083623 | 94 nt | BASIC | 1.65 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm22681-201 | ENSMUST00000083853 | 106 nt | BASIC | 1.65 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm43473-201 | ENSMUST00000200442 | 5997 nt | BASIC | 1.65 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm25377-201 | ENSMUST00000104334 | 129 nt | BASIC | 1.64 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm22494-201 | ENSMUST00000104495 | 128 nt | BASIC | 1.64 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Mir880-201 | ENSMUST00000104809 | 78 nt | BASIC | 1.64 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm24717-201 | ENSMUST00000157522 | 124 nt | BASIC | 1.64 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm23342-201 | ENSMUST00000158958 | 115 nt | BASIC | 1.64 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Mir7016-201 | ENSMUST00000184308 | 72 nt | BASIC | 1.64 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | AC126939.3-201 | ENSMUST00000226061 | 166 nt | BASIC | 1.64 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm29106-201 | ENSMUST00000186264 | 4012 nt | APPRIS P1 TSL 5 BASIC | 1.63 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Tlr8-201 | ENSMUST00000049023 | 3158 nt | APPRIS P1 TSL 1 (best) BASIC | 1.63 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Traj43-201 | ENSMUST00000103699 | 57 nt | APPRIS P1 BASIC | 1.63 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm44489-201 | ENSMUST00000104619 | 97 nt | BASIC | 1.63 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm24605-201 | ENSMUST00000104772 | 96 nt | BASIC | 1.63 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm26084-201 | ENSMUST00000157903 | 104 nt | BASIC | 1.63 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm26864-201 | ENSMUST00000181346 | 156 nt | BASIC | 1.63 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm25820-201 | ENSMUST00000198589 | 127 nt | BASIC | 1.63 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm24616-201 | ENSMUST00000083274 | 139 nt | BASIC | 1.63 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Olfr1013-202 | ENSMUST00000216397 | 4925 nt | APPRIS P1 TSL 2 BASIC | 1.63 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm42664-201 | ENSMUST00000199417 | 3239 nt | BASIC | 1.62 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm23010-201 | ENSMUST00000104151 | 126 nt | BASIC | 1.62 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm26091-201 | ENSMUST00000122704 | 82 nt | BASIC | 1.62 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm22079-201 | ENSMUST00000157592 | 106 nt | BASIC | 1.62 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm26213-201 | ENSMUST00000158582 | 110 nt | BASIC | 1.62 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm23504-201 | ENSMUST00000158988 | 95 nt | BASIC | 1.62 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm20391-201 | ENSMUST00000174722 | 106 nt | BASIC | 1.62 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm26741-201 | ENSMUST00000180473 | 87 nt | APPRIS P1 BASIC | 1.62 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Mir6950-201 | ENSMUST00000184438 | 73 nt | BASIC | 1.62 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Trgj2-201 | ENSMUST00000197113 | 60 nt | APPRIS P1 BASIC | 1.62 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Olfr1421-ps1-201 | ENSMUST00000208900 | 208 nt | BASIC | 1.62 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm24984-201 | ENSMUST00000104454 | 133 nt | BASIC | 1.61 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm14674-201 | ENSMUST00000117816 | 342 nt | BASIC | 1.61 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm24783-201 | ENSMUST00000157639 | 100 nt | BASIC | 1.61 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm25769-201 | ENSMUST00000158569 | 127 nt | BASIC | 1.61 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Mir7225-201 | ENSMUST00000184178 | 54 nt | BASIC | 1.61 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm37579-201 | ENSMUST00000194291 | 142 nt | BASIC | 1.61 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Olfr1225-203 | ENSMUST00000217054 | 5517 nt | APPRIS P1 TSL 5 BASIC | 1.6 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm14568-201 | ENSMUST00000119321 | 294 nt | BASIC | 1.6 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm16186-201 | ENSMUST00000120132 | 216 nt | BASIC | 1.6 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm23996-201 | ENSMUST00000158062 | 131 nt | BASIC | 1.6 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm23289-201 | ENSMUST00000175615 | 108 nt | BASIC | 1.6 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm45654-201 | ENSMUST00000210980 | 123 nt | BASIC | 1.6 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | AC122428.1-201 | ENSMUST00000213709 | 217 nt | TSL 3 BASIC | 1.6 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm31450-201 | ENSMUST00000220668 | 132 nt | TSL 2 BASIC | 1.6 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | CT033781.2-201 | ENSMUST00000221113 | 153 nt | BASIC | 1.6 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | AC129085.5-201 | ENSMUST00000225468 | 400 nt | BASIC | 1.6 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm22884-201 | ENSMUST00000083127 | 140 nt | BASIC | 1.6 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm23100-201 | ENSMUST00000083455 | 141 nt | BASIC | 1.6 | □□□□□ -2.15 | | |
| Hoxa3 | P02831 | Gm22723-201 | ENSMUST00000083820 | 129 nt | BASIC | 1.6 | □□□□□ -2.15 | | |