Background
Methods
Experimental animal model and sample preparations
Suppression subtractive hybridization and differential hybridization screening
Gene expression analysis
Gene | Primer Sequence (5′-3′)a
| GenBank accession number | |
---|---|---|---|
ADAMTS1
| Fwd | CGATAAATGTGGCATCTGTGGAG | NM_001101080 |
Rv | AGCCCACACGACTTGGAACACTC | ||
ADAMTS9
| Fwd | GGAAATCCGTATTGGGAATGCTG | NM_001206573 |
Rv | CATCTAGCCTGCTGTACTTGGC | ||
ARAF
| Fwd | TCTAACAACATCTTCCTGCACGAG | NM_001014964 |
Rv | GGCAACTCATCAGCCTGGGTAC | ||
CAPN2
| Fwd | TGAGGGCTTCGAGGACTTCACTG | NM_001103086 |
Rv | GCTGTCACTGGTGAGTGTGTCAG | ||
CRISPLD2
| Fwd | CTATGGGATCCTGGACGACAGG | AY369781 |
Rv | CCTGCAAGTTCACTGCCTGACG | ||
CYP19A1
| Fwd | GTCCGAAGTTGTGCCTATTGCCAGC | NM_174305 |
Rv | CCTCCAGCCTGTCCAGATGCTTGG | ||
FKBP4
| Fwd | TCCATTCCTCGTGAATGAATGTCC | NM_001034322 |
Rv | TGAACCTTCAGCAACGTGCAGAG | ||
FKBP5
| Fwd | ACTGGAGCAGGCTGCCATTGTC | XM_615814 |
Rv | CTTGAACATGTTGGCATAGATTCTG | ||
GAPDH
| Fwd | TGTTCCAGTATGATTCCACCCACG | NM_001034034 |
Rv | CTGTTGAAGTCGCAGGAGACAACC | ||
KITLG1
| Fwd | AGTAACCGTGTGACTGATGATGTG | NM_174375 |
Rv | AGAATGCTGGCAATGCTACGGCTG | ||
KITLG2
| Fwd | AGTAACCGTGTGACTGATGATGTG | NM_174375 |
Rv | CTAAGGGAGCTGGCTGCAACAG | ||
L3MBTL3
| Fwd | GTTATTACAGATGAGAGTGAGATGG | AY437805 |
Rv | ACTTAAAGGACAGAAAGACGGC | ||
L3MBTL3
| Fwd | CTTACCTGGATGTGAAGAACATGG | AY437805 |
(3’end of ORF) | Rv | CTGCAAGGTCTAAGACAGAGCTC | |
MMP1
| Fwd | CTTGGACTTGCTCATTCTACTGAC | NM_174112 |
Rv | GGCATCGATGCTCTTCACCGTTC | ||
MRO
| Fwd | GGTGAGTTCTGAAGTCATCCATG | BC146146 |
Rv | CCTGGTGTGCCGACCACCTTC | ||
NUDT10
| Fwd | GACAGGTGAGCTCTTTCACACTC | NM_001035488 |
Rv | GGAGTTATGTCTAGAGGCACAGTC | ||
NUDT11
| Fwd | GAACAGCAAAGATGTCCAGGATTG | NM_001101296 |
Rv | CACACACATGGTGCCTGGAGAG | ||
P4HA3
| Fwd | TTGGCAAGGTGGCCTATGACATG | NM_001001598 |
Rv | CTGGAGCAGCAGGTAAGGACTG | ||
POSTN
| Fwd | CCAAAGCCCACTGCCAGTTCTC | AY445072 |
Rv | GAAAGCCACTTTGATGTGAAGAATGAG | ||
PSAP
| Fwd | CTTCCTCCTGTACCCTCAGGAC | NM_174161 |
Rv | GGGATGACGTTCTCTGAGACCAC | ||
PTGS2
| Fwd | GCATTCTTTGCCCAGCACTTCACCC | NM_174445 |
Rv | CTATCAGGATTAGCCTGCTTGTCTGG | ||
RBP1
| Fwd | CGGTCGACTTTACCGGGTACTG | NM_001025343 |
Rv | GTCATGTCACTCATTCCTAGAGAC | ||
SDC4
| Fwd | TCCGAGAAACTGAGGTCATCGAC | XM_584869 |
Rv | GGTACACCAGCAGCAGCACGAG | ||
TIMP1
| Fwd | CGTCATCAGGGCCAAGTTCGTG | NM_174471 |
Rv | GCAAGGACTGCCAGGTGCACAG | ||
TIMP2
| Fwd | TGCAATGCAGACATAGTGATCAGG | NM_174472 |
Rv | CGCTTCTCTTGATGCAGGCGAAG | ||
TNC
| Fwd | CTATGTGCCCATTGCAGGAGGTG | NM_001078026 |
Rv | AACTTGGTGGTGATGGTTGAGCTC | ||
USP53
| Fwd | GAGAGCATACCCACCAGTCAGATG | BC149007 |
Rv | GTTACTTTGACATCAGGAGTAGAGTC |
Characterization of bovine POSTN, CRISPLD2 and L3MBTL3 cDNAs
Gene | Accession Numbera
| Freqb
| Accession Numberc
| Identity (%)d
| E value | Descriptione
|
---|---|---|---|---|---|---|
ACTG1
| EG565281 | 3 | NM_001033618 | 100% | 0 | BT Actin gamma 1 |
ADAMTS1
| GR508913 | 1 | NM_001101080 | 100% | 2e−126
| BT ADAM metallopeptidase with thrombospondin type 1 motif 1 |
APP
| EG565335 | 1 | NM_001076796 | 100% | e−107
| BT Amyloid beta precursor protein |
ARAF
| EG565327 | 4 | NM_001014964 | 100% | 0 | BT A-Raf proto-oncogene. Serine/threonine kinase |
ASB9
| EG565323 | 2 | AY438595 | 99% | 4e−179
| BT Ankyrin repeat and SOCS box-containing 9 |
BIRC2
| EG565293 | 1 | XM_015466434 | 100% | 2e−67
| BT Baculoviral inhibitor of apoptosis repeat containing 2 |
CAPN2
| EG565332 | 1 | NM_001103086 | 100% | 8e−57
| BT Calpain 2, (m/II) large subunit |
CAV1
| EG565338 | 20 | AY823915 | 100% | 0 | BT Caveolin 1 |
CD83
| EG565265 | 1 | NM_001046590 | 99% | 0 | BT CD83 molecule |
CDC42SE2
| EG565271 | 1 | NM_001102537 | 96% | 2e−180
| BT CDC42 small effector 2 |
CRISPLD2
| EG565333 | 16 | AY369781 | 100% | 0 | BT Cysteine-rich secretory protein LCCL domain containing 2 |
CSRP3
| EG565284 | 1 | NM_001024689 | 99% | 3e−165
| BT Cysteine and glycine-rich protein 3 |
CTSK
| EG565324 | 1 | NM_001034435 | 100% | 5e−168
| BT Cathepsin K |
DHTKD1
| EG565315 | 1 | NM_001205838 | 100% | 3e−170
| BT Dehydrogenase E1 and transketolase domain containing 1 |
EGR1
| EG565268 | 1 | AY924307 | 98% | 9e−127
| BT Early growth response 1 |
EIF4E3
| EG565311 | 1 | NM_001102306 | 99% | e−179
| BT Eukaryotic translation initiation factor 4E family member 3 |
FKBP5
| EG565325 | 6 | NM_001192862 | 100% | 0 | BT FK506-binding protein 5 |
GEM
| EG565288 | 2 | NM_001083732 | 100% | 0 | BT GTP binding protein overexpressed in skeletal muscle |
GFPT2
| EG565318 | 5 | NM_001076883 | 99% | 4e−168
| BT Glutamine-fructose-6-phosphate transaminase 2 |
GRIA3
| EG565320 | 3 | NM_001206059 | 99% | 2e−166
| BT Glutamate ionotropic receptor AMPA type subunit 3 |
KIT
| EG565345 | 1 | XM_005207937 | 99% | 7e−110
| BT KIT proto-oncogene receptor tyrosine kinase |
KITLG
| EG565276 | 5 | NC_007303 | 99% | 0 | BT KIT ligand |
L3MBTL3
| EG565310 | 2 | AY437805 | 100% | 7e−73
| BT Histone methyl-lysine binding protein |
LRIG1
| EG565303 | 1 | XM_002696962 | 100% | 2e−84
| BT Leucine-rich repeats and immunoglobulin-like domains 1 |
MAOA
| EG565344 | 4 | NM_181014 | 99% | 2e−109
| BT Monoamine oxidase A |
MMP1
| GR508914 | 3 | NM_174112 | 100% | 8e−83
| BT Matrix metallopeptidase 1 |
MORF4L1
| EG565343 | 1 | NM_001035448 | 98% | 4e−38
| BT Mortality factor 4 like 1 |
MRO
| EG565273 | 4 | XM_005224181 | 100% | 1e−95
| BT Maestro |
NT5E
| EG565299 | 1 | NM_174129 | 100% | 0 | BT 5′-Nucleotidase, ecto |
NUDT10
| GR508915 | 2 | NM_001035488 | 100% | 2e−138
| BT Nudix hydrolase 10 |
NUDT11
| EG565272 | 3 | NM_001101296 | 100% | 0 | BT Nudix hydrolase 11 |
P4HA3
| EG565269 | 2 | NM_001001598 | 100% | 1e−96
| BT Propyl 4-hydroxylase subunit alpha 3 |
PAPSS2
| EG565283 | 1 | XM_583370 | 99% | 0 | BT 3′-Phosphoadenosine 5′-phosphosulfate synthase 2 |
PIR
| EG565279 | 1 | NM_001102358 | 100% | 1e−101
| BT Pirin (iron-binding nuclear protein) |
PLA2G4A
| EG565305 | 1 | AY363688 | 100% | 4e−164
| BT Phospholipase A2 group IVA |
PLAT
| EG565294 | 8 | NM_174146 | 99% | 0 | BT Plasminogen activator, tissue type |
POSTN
| EG565275 | 33 | AY445072 | 100% | 0 | BT Periostin |
PSAP
| EG565278 | 2 | NM_174161 | 99% | 8e−89
| BT Prosaposin |
PTGES
| EG565342 | 1 | AY032727 | 100% | 1e−122
| BT Prostaglandin E synthase |
PTGS2
| EG565287 | 24 | AF031698 | 100% | 0 | BT Prostaglandin-endoperoxide synthase 2 |
PTX3
| EG565317 | 2 | NM_001076259 | 98% | 3e−61
| BT Pentraxin |
RBP1
| EG565267 | 1 | NM_001025343 | 99% | 5e−101
| BT Retinol binding protein 1 |
RGS2
| EG565346 | 4 | NM_001075596 | 100% | 7e−130
| BT Regulator of G-protein signaling 2 |
RND3
| EG565300 | 1 | NM_001099104 | 100% | 1e−127
| BT Rho family GTPase 3 |
SAT1
| EG565349 | 26 | NM_001034333 | 99% | 0 | BT Spermidine/spermine N1-acetyltransferase 1 |
SDC4
| EG565289 | 3 | XM_584869 | 99% | 1e−136
| BT Syndecan 4 |
SEH1L
| EG565340 | 1 | NM_001103089 | 99% | 1e−158
| BT SEH1-like nucleoporin |
SLC25A17
| EG565266 | 1 | NM_001045948 | 99% | 0 | BT Solute carrier family 25 member 17 |
SOX4
| EG565285 | 1 | NC_007324 | 99% | 8e−173
| BT SRY-box 4 |
SULT1A1
| EG565308 | 1 | NM_177521 | 99% | 2e−99
| BT Sulfotransferase family 1A member 1 |
SULT1E1
| GR508916 | 2 | NM_177488 | 99% | 4e−60
| BT Sulfotransferase family 1E member 1 |
TIMP1
| GR508917 | 3 | NM_174471 | 100% | 2e−90
| BT TIMP metallopeptidase inhibitor 1 |
TIMP2
| EG565302 | 1 | NM_174472 | 99% | 5e−163
| BT TIMP metallopeptidase inhibitor 2 |
TMEM176B
| EG565301 | 1 | NM_001099145 | 99% | 3e−165
| BT Transmembrane protein 176B |
TMSB4X
| EG565291 | 3 | NM_001113231 | 99% | 5e−173
| BT Thymosin beta 4, X-linked |
TMSB10 | EG565264 | 1 | NM_174623 | 100% | 2e−131
| BT Thymosin beta 10 |
TNC
| EG565326 | 2 | NM_001078026 | 99% | 0 | BT Tenascin C |
TNFAIP6
| EG565319 | 5 | NM_001007813 | 99% | 0 | BT Tumor necrosis factor alpha-induced protein 6 |
USP53
| EG565304 | 1 | XM_015463685 | 100% | 8e−78
| BT Ubiquitin specific peptidase 53 |
VNN2
| EG565337 | 2 | NM_001163920 | 100% | 0 | BT Vanin 2 |
EST | EG565334 | 1 | AC_000158 | 100% | 3e−74
| BT transcribed locus, chromosome 1 |
EST | EG565313 | 8 | AC_000159 | 99% | 3e−143
| BT transcribed locus, chromosome 2 [3’UTR of TNFAIP6] |
EST | EG565321 | 4 | AC_000159 | 100% | 0 | BT transcribed locus, chromosome 2 [intron 1 of TNFAIP6] |
EST | EG565339 | 2 | AC_000159 | 99% | 0 | BT transcribed locus, chromosome 2 [intron 1 of TNFAIP6] |
EST | EG565316 | 1 | AC_000159 | 99% | 0 | BT transcribed locus, chromosome 2 [intron 1 of TNFAIP6] |
EST | EG565341 | 2 | AC_000159 | 99% | 4e−70
| BT transcribed locus, chromosome 2 [3’UTR of TNFAIP6] |
EST | EG565336 | 1 | AC_000161 | 99% | 0 | BT transcribed locus, chromosome 4 [3’UTR of Ubiquitin-conjugated enzyme E2H; UBE2H] |
EST | EG565296 | 1 | AC_000163 | 100% | 0 | BT transcribed locus, chromosome 6 |
EST | EG565307 | 1 | AC_000167 | 98% | 4e−106
| BT transcribed locus, chromosome 10 [intron 2 of Nidogen 2; NID2] |
EST | EG565328 | 1 | AC_000169 | 99% | 0 | BT transcribed locus, chromosome 12 [intron 1 of Glypican-6; GPC6] |
EST | EG565274 | 1 | AC_000169 | 99% | 3e−133
| BT transcribed locus, chromosome 12 |
EST | EG565270 | 1 | AC_000172 | 99% | 8e−175
| BT transcribed locus, chromosome 15 [3’UTR of Rho GTPase activating protein 20; ARHGAP20] |
EST | EG565314 | 1 | AC_000179 | 100% | 6e−156
| BT transcribed locus, chromosome 22 [intron 28 of ADAM metallopeptidase with thrombospondin type 1 motif 9; ADAMTS9] |
EST | EG565295 | 1 | AC_000180 | 100% | 0 | BT transcribed locus, chromosome 23 [intron of runt related transcription factor 2; RUNX2] |
EST | EG565309 | 1 | AC_000185 | 99% | 0 | BT transcribed locus, chromosome 28 [3’UTR of Sterile alpha motif domain containing 8; SAMD8] |