OR2T4 Olfactory Receptor
| Gene Symbol | OR2T41 (View this gene in GeneCards) |
| Family | 2 |
| Subfamily | T |
| Pseudogene | No |
| CORP pseudogene probability score | 0.02 (functional) |
| Aliases | OR1-60, HsOR1.5.37, ORL3003 |
| External Ids | HGNC: 15016 GeneBank: AB065615, BK004464, NM_001004696 ORDB: ORL3003 |
| Build #39 labels | OR2T4 |
| Chromosomal location | 1:248,361,635-248,362,624 (+) |
| Cluster | 1@248 |
| Synteny | CLIC#5 |
| Remarks |
Most Similar ORs in Humans (Paralogs)
| Symbol | Percent | Length |
|---|---|---|
| OR2T29 | 91.8% | 305 |
| OR2T5 | 91.48% | 305 |
Most Similar ORs in other species (Orthologs)
| Specie | Symbol | Percent | Length |
|---|---|---|---|
| Dog | OR2T4C | 83% | 320 |
| Dog | OR2T4D | 81% | 320 |
| Dog | OR2T4B | 80% | 320 |
| Mouse | Or2t29 | 79% | 313 |
| Rat | Or2t29b-ps | 77% | 316 |
| Cow | OR2T29 | 83% | 311 |
| Cow | OR2T29C | 81% | 312 |
| Orang | OR2T4F | 91% | 311 |
| Horse | OR2T79 | 78% | 320 |
| Chimp | OR2T4E | 91% | 318 |
| Chimp | OR2T29 | 89% | 312 |
Expression evidences
| Source | Accession |
|---|---|
| GNF Atlas2 | gnf1h02155_at |
| GNF Atlas2 | gnf1h10657_s_at |
| GNF Atlas2 | gnf1h10658_at |
Sequence information
| Nucleotide sequence |
ATGGGACTCTTCAGACAATCCAAACATCCAATGGCCAATATCACCTGGATGGCCAACCAC ACTGGATGGTCGGATTTCATCCTGTTGGGACTCTTCAGACAATCCAAACATCCAGCACTA CTTTGTGTGGTCATTTTTGTGGTTTTCCTGATGGCGTTGTCTGGAAATGCTGTCCTGATC CTTCTGATACACTGTGACGCCCACCTCCACACCCCCATGTACTTTTTCATCAGTCAATTG TCTCTCATGGACATGGCGTACATTTCTGTCACTGTGCCCAAGATGCTCCTGGACCAGGTC ATGGGTGTGAATAAGATCTCAGCCCCTGAGTGTGGGATGCAGATGTTCTTCTACGTGACA CTAGCAGGTTCAGAATTTTTCCTTCTAGCCACCATGGCCTATGACCGCTACGTGGCCATC TGCCATCCTCTCCGTTACCCTGTCCTCATGAACCATAGGGTGTGTCTCTTCCTGTCATCA GGCTGCTGGTTCCTGGGCTCAGTGGATGGCTTCACATTCACTCCCATCACCATGACCTTC CCCTTCCGTGGATCCCGGGAGATTCATCATTTCTTCTGTGAAGTTCCTGCTGTATTGAAT CTCTCCTGCTCAGACACCTCACTCTATGAGATTTTCATGTACTTGTGCTGTGTCCTCATG CTCCTCATCCCTGTGGTGATCATTTCAAGCTCCTATTTACTCATCCTCCTCACCATCCAC GGGATGAACTCAGCAGAGGGCCGGAAAAAGGCCTTTGCCACCTGCTCCTCCCACCTGACT GTGGTCATCCTCTTCTATGGGGCTGCCATCTACACCTACATGCTCCCCAGCTCCTACCAC ACCCCTGAGAAGGACATGATGGTATCTGTCTTCTATACCATCCTCACTCCAGTGGTGAAC CCTTTAATCTATAGTCTTAGGAATAAGGATGTCATGGGGGCTCTGAAGAAAATGTTAACA GTGGAACCTGCCTTTCAAAAAGCTATGGAG |
| Conceptual translation |
MGLFRQSKHPMANITWMANHTGWSDFILLGLFRQSKHPALLCVVIFVVFLMALSGNAVLI LLIHCDAHLHTPMYFFISQLSLMDMAYISVTVPKMLLDQVMGVNKISAPECGMQMFFYVT LAGSEFFLLATMAYDRYVAICHPLRYPVLMNHRVCLFLSSGCWFLGSVDGFTFTPITMTF PFRGSREIHHFFCEVPAVLNLSCSDTSLYEIFMYLCCVLMLLIPVVIISSSYLLILLTIH GMNSAEGRKKAFATCSSHLTVVILFYGAAIYTYMLPSSYHTPEKDMMVSVFYTILTPVVN PLIYSLRNKDVMGALKKMLTVEPAFQKAME Protein domains and features |
Variations - SNPs
| Chr | Start | End | Type | Variation | AA Change | SNP IDs |
|---|---|---|---|---|---|---|
| 1 | 100 | -100 | NS | G/A | G/E | 1000GP (YRI, YRI, YRI, YRI, YRI, YRI) |
| 1 | 100 | -100 | SYN | A/T | A/A | 1000GP (YRI, YRI, YRI, YRI, YRI, YRI, YRI) |
| 1 | 248,361,751 | 248,361,751 | SYN | A/T | A/A | 1000GP (CEU, CHBJPT) |
| 1 | 248,361,758 | 248,361,758 | NS | T/A | C/S | 1000GP (CEU, CHBJPT) |
| 1 | 248,361,769 | 248,361,769 | SYN | T/C | I/I | 1000GP (CEU, CHBJPT) |
| 1 | 248,361,784 | 248,361,784 | SYN | G/A | L/L | 1000GP (CEU) |
| 1 | 248,361,798 | 248,361,798 | NS | G/A | G/E | 1000GP (CEU) |
| 1 | 248,361,833 | 248,361,833 | NS | G/A | A/T | 1000GP (CHBJPT) |
| 1 | 248,361,836 | 248,361,836 | NS | C/T | H/Y | 1000GP (CEU, CHBJPT) |
| 1 | 248,361,844 | 248,361,844 | SYN | C/T | H/H | 1000GP (CEU, CHBJPT) |
| 1 | 248,361,983 | 248,361,983 | NS | T/C | F/L | 1000GP (CEU, CHBJPT) |
| 1 | 248,361,988 | 248,361,988 | SYN | C/T | Y/Y | 1000GP (CEU, CHBJPT) |
| 1 | 248,361,989 | 248,361,989 | NS | G/C | V/L | 1000GP (CEU, CHBJPT) |
| 1 | 248,362,345 | 248,362,345 | SYN | C/A | L/L | 1000GP (CEU, CHBJPT) |
| 1 | 248,362,348 | 248,362,348 | SYN | C/T | T/T | 1000GP (CEU, CHBJPT) |
| 1 | 248,362,355 | 248,362,355 | NS | G/A | G/R | 1000GP (CEU, CHBJPT) |
| 1 | 248,524,967 | 248,525,050 | Del(83) | Del | rs71811615 (DbSNP) | |
| 1 | 248,524,971 | 248,524,971 | NS | A/C | D/A | rs45554631 (DbSNP) |
| 1 | 248,524,974 | 248,524,974 | NS | A/G | N/S | rs57795102 (DbSNP) |
| 1 | 248,524,975 | 248,524,975 | SYN | C/T | N/N | rs45627735 (DbSNP) |
| 1 | 248,524,992 | 248,524,992 | NS | A/G | N/S | rs45552134 (DbSNP) |
| 1 | 248,525,021 | 248,525,021 | NS | A/T | M/L | rs45438195 (DbSNP) |
| 1 | 248,525,053 | 248,525,053 | SYN | A/T | A/A | rs28415565 (DbSNP) |
| 1 | 248,525,060 | 248,525,060 | NS | A/T | S/C | rs28491677 (DbSNP) |
| 1 | 248,525,071 | 248,525,071 | SYN | C/T | I/I | rs28499298 (DbSNP) |
| 1 | 248,525,086 | 248,525,086 | SYN | A/G | L/L | rs45604640 (DbSNP) |
| 1 | 248,525,100 | 248,525,100 | NS | A/G | E/G | rs73146195 (DbSNP) |
| 1 | 248,525,143 | 248,525,143 | SYN | C/T | L/L | rs34261040 (DbSNP) |
| 1 | 248,525,146 | 248,525,146 | SYN | C/T | H/H | rs28482938 (DbSNP) |
| 1 | 248,525,193 | 248,525,193 | NS | C/T | A/V | rs28655275 (DbSNP) |
| 1 | 248,525,285 | 248,525,285 | NS | C/T | L/F | rs28637620 (DbSNP) |
| 1 | 248,525,285 | 248,525,286 | Del(2) | -/TT | rs58006779 (DbSNP) | |
| 1 | 248,525,289 | 248,525,289 | Del(1) | -/A | rs61131289 (DbSNP) | |
| 1 | 248,525,291 | 248,525,291 | Del(1) | -/G | rs57728407 (DbSNP) | |
| 1 | 248,525,291 | 248,525,291 | NS | C/G | L/V | rs28540568 (DbSNP) |
| 1 | 248,525,329 | 248,525,328 | Ins(2) | -/TA | rs61248663 (DbSNP) | |
| 1 | 248,525,330 | 248,525,330 | NS | A/G | M/V | rs56721857 (DbSNP) |
| 1 | 248,525,353 | 248,525,353 | SYN | C/T | A/A | rs41308198 (DbSNP) |
| 1 | 248,525,536 | 248,525,536 | SYN | C/T | N/N | rs61299560 (DbSNP) |
| 1 | 248,525,639 | 248,525,639 | Del(1) | -/A | rs34079073 (DbSNP) | |
| 1 | 248,525,647 | 248,525,647 | SYN | A/C | L/L | rs28405645 (DbSNP) |
| 1 | 248,525,650 | 248,525,650 | SYN | C/T | T/T | rs28602650 (DbSNP) |
| 1 | 248,525,657 | 248,525,657 | NS | A/G | R/G | rs28718027 (DbSNP) |
| 1 | 248,525,780 | 248,525,780 | NS | C/T | P/S | rs28698997 (DbSNP) |
| 1 | 248,525,847 | 248,525,847 | NS | A/G | Y/C | rs74153570 (DbSNP) |
| 1 | 248,525,913 | 248,525,913 | Del(1) | -/A | rs35286335 (DbSNP) |
Variations - CNVs
| Chr | Start | End | Type | Sources |
|---|---|---|---|---|
| 1 | 248,060,959 | 249,167,690 | CopyNumber | Variation_8354 (DGV) |
| 1 | 248,242,528 | 248,817,382 | CopyNumber | Variation_8935 (DGV) |
| 1 | 248,500,109 | 248,865,374 | CopyNumber | Variation_3340 (DGV) |
| 1 | 248,522,680 | 249,158,239 | CopyNumber | Variation_8355 (DGV) |
| 1 | 248,524,640 | 248,524,963 | InDel | Variation_33214 (DGV) |
Haplotypes
Protein haplotypes were calculated using the 1000 genomes project as described in Olender T. et. al. BMC Genomics 2012.
| N3S | N9S | L19M | C32S | G45E | R173H | G231R | P272S | Y294C | R297K | M319I | % Freq | CORP | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | N | N | L | C | G | R | G | P | Y | R | M | 58.99 | 0.293 |
| 2 | N | N | L | C | E | R | G | P | Y | R | M | 11.98 | 0.293 |
| 3 | N | N | L | C | G | R | R | S | Y | R | M | 6.84 | 0.293 |
| 4 | S | N | L | S | G | R | R | S | Y | R | M | 4.53 | 0.293 |
| 5 | N | N | M | S | G | R | R | S | Y | R | M | 2.61 | 0.293 |
| 6 | N | N | L | C | E | R | R | S | Y | R | M | 2.07 | 0.293 |
| 7 | N | S | M | S | G | R | R | S | Y | R | M | 1.92 | 0.293 |
| 8 | S | N | L | C | G | R | R | S | Y | R | M | 1.69 | 0.293 |
| 9 | N | N | M | S | E | R | R | S | Y | R | M | 1.15 | 0.293 |
| 10 | N | N | L | C | G | R | G | S | Y | R | M | 1.15 | 0.293 |
| 11 | S | N | L | S | E | R | R | S | Y | R | M | 1.08 | 0.293 |
| 12 | N | S | M | S | E | R | R | S | Y | R | M | 0.69 | 0.293 |
| 13 | N | S | M | C | G | R | R | S | Y | R | M | 0.61 | 0.293 |
| 14 | N | N | L | S | G | R | R | S | Y | R | M | 0.61 | 0.293 |
| 15 | N | N | L | C | E | R | G | S | Y | R | M | 0.46 | 0.293 |
| 16 | N | N | M | C | G | R | R | S | Y | R | M | 0.46 | 0.293 |
| 17 | N | N | M | C | E | R | R | S | Y | R | M | 0.31 | 0.293 |
| 18 | N | N | L | C | E | R | G | P | Y | R | I | 0.31 | 0.293 |
| 19 | N | N | L | C | G | R | R | P | Y | R | M | 0.31 | 0.293 |
| 20 | N | S | M | C | E | R | R | S | Y | R | M | 0.31 | 0.293 |
| 21 | N | S | L | C | G | R | R | S | Y | R | M | 0.31 | 0.293 |
| 22 | S | N | L | C | E | R | R | S | Y | R | M | 0.23 | 0.293 |
| 23 | N | N | L | C | G | R | G | P | C | R | M | 0.23 | 0.293 |
| 24 | N | N | L | S | E | R | R | S | Y | R | M | 0.15 | 0.293 |
| 25 | N | N | M | S | G | R | G | S | Y | R | M | 0.15 | 0.293 |
| 26 | N | N | L | C | E | R | G | P | Y | K | M | 0.15 | 0.293 |
| 27 | N | N | L | C | G | H | R | S | Y | R | M | 0.08 | 0.293 |
| 28 | N | N | M | S | E | R | G | S | Y | R | M | 0.08 | 0.293 |
| 29 | N | N | L | S | G | R | G | S | Y | R | M | 0.08 | 0.293 |
| 30 | S | N | L | S | G | R | G | S | Y | R | M | 0.08 | 0.293 |
| 31 | N | N | L | S | E | R | G | S | Y | R | M | 0.08 | 0.293 |
| 32 | N | N | L | C | E | R | G | P | C | R | M | 0.08 | 0.293 |
| 33 | N | S | M | S | G | R | G | S | Y | R | M | 0.08 | 0.293 |
| 34 | N | N | L | S | G | R | G | P | Y | R | M | 0.08 | 0.293 |
| 35 | S | N | L | S | G | R | R | P | Y | R | M | 0.08 | 0.293 |
AceView Gene Models
The information is based on AceView gene models, constructed from cDNA sequences. The information might be incomplete.
| Accession | Type | Chr | Start | End | Strand | |
|---|---|---|---|---|---|---|
| OR2T4.aApr07-unspliced | main_exon | 5UTR | chr1 | 248,361,581 | 248,361,635 | + |
| CDS | chr1 | 248,361,635 | 248,362,624 | + | ||
| 3UTR | chr1 | 248,362,624 | 248,362,627 | + | ||