Rroxscaffold_3G00220110

Mitochondrial protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0000154
Physical Location & Seq
Forward (+)
2321523 .. 2322161
639 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00220110.1

Sequence Viewer

Length: 639 bp
ATGGCTTCAAGTTCAGAGGGAGGTTTTGTGCAGCCTGCCATACCGAAATTTGATGGCCACTATGATCACTGGGCCATGTTGATGGAAAATTTCTTGAGGTCAAAGGAGTATTGGCCATTGATCGAAGATGGAATCACAGCAGTGGAGAATGAGGCAGCATTGACAGAGGCACAAAGGAAGACTATTGATGAACAAAAACTTAAGGATCTCAAAGTGAAGAACTATCTCTTCCAATCCATTGATCGTACGATAATGGAAACAATCCTTAACAGAGAAACAGCCAAGAATATTTGGGATTCCATGAAACAGAAGTTCCAAGGGTCAACTAGAGTCAAGCGTGCCCAATTACAAGCCTTGAGGAGAGAGTTTGAAGTCCTGCAGATGAAGGAAGGTGAGAAGGTGAATGAATACTTCTCTAGGACTCTTGCAATTGCCAATAAAATGAAGATTCATGGGGAGAGGATGGAGCAGGTGGTAATCATCGAAAAAATATTGAGGTCTATGACCTCAAAGTTTGATTACGTGGTGTGCTCTGTTGAAGAGTGCAATAACTTGGAGACTTTGACAATAGATGAGCTGCAGAGTAGTCTTTTGGTGCACGAACAAAGGATGAACGGACATGGGAATGAAGAACGTTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
RVT_2 Retrotran_gag_2 Retrotran_gag_3 Retrotrans_gag gag_pre-integrs rve zf-CCHC

Protein Analysis

212

Amino Acids

24.75

Weight (kDa)

5.83

Isoelectric Point (pI)

55.38

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_2 PF14223 28 - 206 5.4e-28 gag-polypeptide of LTR copia-type
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000154)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g02351 FvH4_1g18383 FvH4_1g18442 FvH4_1g19622 FvH4_2g08148 FvH4_2g16312 FvH4_3g06912 FvH4_3g10761 FvH4_3g12332 FvH4_3g12332 FvH4_3g14182 FvH4_3g21021 FvH4_3g35231 FvH4_3g45132 FvH4_4g08663 FvH4_4g30271 FvH4_4g30272 FvH4_4g30901 FvH4_4g30902 FvH4_5g12471 FvH4_5g22951 FvH4_6g07331 FvH4_6g07332 FvH4_6g41872 FvH4_6g43841 FvH4_6g43842 FvH4_6g48811 FvH4_7g03911 FvH4_7g13272 FvH4_7g21181 FvH4_7g29024 FvH4_7g33702
malus_domestica MD00G1037700.v1.1 MD01G1037300.v1.1 MD01G1096700.v1.1 MD01G1101100.v1.1 MD01G1129400.v1.1 MD02G1295200.v1.1 MD03G1131300.v1.1 MD04G1072100.v1.1 MD05G1104800.v1.1 MD07G1028600.v1.1 MD07G1274600.v1.1 MD08G1027200.v1.1 MD09G1044400.v1.1 MD09G1044700.v1.1 MD09G1129500.v1.1 MD09G1238700.v1.1 MD10G1011700.v1.1 MD10G1071400.v1.1 MD10G1108600.v1.1 MD10G1162100.v1.1 MD10G1162300.v1.1 MD11G1016700.v1.1 MD11G1074500.v1.1 MD15G1058600.v1.1 MD15G1383000.v1.1 MD16G1192200.v1.1 MD17G1077400.v1.1 MD17G1077500.v1.1
pyrus_communis pycom01g03520 pycom02g00350 pycom03g09910 pycom03g13960 pycom03g13970 pycom03g19180 pycom04g08410 pycom04g10140 pycom06g03750 pycom07g09240 pycom07g09260 pycom08g20130 pycom09g11020 pycom10g12690 pycom14g04140 pycom14g05710 pycom16g06380 pycom17g05500 pycom808g00140
rosa_chinensis RchiOBHm_Chr1g0316211 RchiOBHm_Chr1g0319901 RchiOBHm_Chr1g0321811 RchiOBHm_Chr1g0329831 RchiOBHm_Chr1g0330721 RchiOBHm_Chr1g0330731 RchiOBHm_Chr1g0368461 RchiOBHm_Chr1g0381111 RchiOBHm_Chr2g0154461 RchiOBHm_Chr2g0164521 RchiOBHm_Chr2g0175301 RchiOBHm_Chr3g0451301 RchiOBHm_Chr3g0453691 RchiOBHm_Chr3g0470191 RchiOBHm_Chr3g0486561 RchiOBHm_Chr4g0409141 RchiOBHm_Chr4g0409151 RchiOBHm_Chr4g0421231 RchiOBHm_Chr4g0440701 RchiOBHm_Chr5g0018211 RchiOBHm_Chr5g0023611 RchiOBHm_Chr5g0045971 RchiOBHm_Chr5g0056061 RchiOBHm_Chr5g0063381 RchiOBHm_Chr5g0064011 RchiOBHm_Chr5g0064021 RchiOBHm_Chr5g0064041 RchiOBHm_Chr6g0259681 RchiOBHm_Chr6g0259691 RchiOBHm_Chr6g0296531 RchiOBHm_Chr7g0186421 RchiOBHm_Chr7g0192321 RchiOBHm_Chr7g0198271 RchiOBHm_Chr7g0198951 RchiOBHm_Chr7g0237911
rosa_laevigata RLG00000026946
rosa_roxburghii Rroxscaffold_1G00014460 Rroxscaffold_1G00014610 Rroxscaffold_1G00028950 Rroxscaffold_1G00052630 Rroxscaffold_2G00104760 Rroxscaffold_2G00138900 Rroxscaffold_2G00145210 Rroxscaffold_3G00220110 Rroxscaffold_4G00297860 Rroxscaffold_4G00321570 Rroxscaffold_5G00332990 Rroxscaffold_5G00360870
rosa_samantha Rh1AG319600 Rh1CG299100 Rh4DG385900 Rh5BG032200
rosa_wichuraiana Rw0G002380 Rw0G003050 Rw0G003940 Rw1G002730 Rw1G003260 Rw1G005490 Rw1G016140 Rw1G016150 Rw1G017930 Rw1G017940 Rw1G022540 Rw1G022630 Rw1G031080 Rw1G039680 Rw2G003340 Rw2G003720 Rw2G006640 Rw2G020790 Rw2G025650 Rw2G028430 Rw2G029550 Rw2G034920 Rw2G040820 Rw2G048420 Rw2G048570 Rw3G010040 Rw3G022790 Rw3G023350 Rw3G025140 Rw3G028810 Rw4G000680 Rw4G003350 Rw4G004640 Rw4G026650 Rw4G034500 Rw5G008490 Rw5G020650 Rw5G023000 Rw5G033610 Rw5G037280 Rw5G046620 Rw5G050250 Rw6G001410 Rw6G005690 Rw6G005820 Rw6G010920 Rw6G022790 Rw6G023940 Rw6G026290 Rw6G028610 Rw6G031260 Rw6G036550 Rw6G036560 Rw7G015300 Rw7G017250 Rw7G018150 Rw7G031960 Rw7G036490

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 460
Acc36I ACCTGC 1 cut(s) 460
AclI AACGTT 1 cut(s) 634
AclWI GGATC 1 cut(s) 213
AcoI YGGCCR 2 cut(s) 55, 113
AcsI RAATTY 2 cut(s) 47, 88
AfaI GTAC 1 cut(s) 247
AflII CTTAAG 1 cut(s) 200
AgsI TTSAA 3 cut(s) 9, 371, 539
AleI CACNNNNGTG 1 cut(s) 140
AluBI AGCT 1 cut(s) 577
AluI AGCT 1 cut(s) 577
Alw21I GWGCWC 2 cut(s) 533, 600
Alw26I GTCTC 1 cut(s) 551
Alw44I GTGCAC 1 cut(s) 596
AlwI GGATC 1 cut(s) 213
AoxI GGCC 3 cut(s) 55, 72, 113
ApaLI GTGCAC 1 cut(s) 596
ApeKI GCWGC 3 cut(s) 31, 155, 577
ApoI RAATTY 2 cut(s) 47, 88
AspS9I GGNCC 1 cut(s) 72
AsuHPI GGTGA 2 cut(s) 404, 412
BaeGI GKGCMC 2 cut(s) 343, 600
BalI TGGCCA 2 cut(s) 57, 115
BbsI GAAGAC 1 cut(s) 185
Bbv12I GWGCWC 2 cut(s) 533, 600
BbvI GCAGC 3 cut(s) 43, 167, 564
BccI CCATC 4 cut(s) 47, 76, 122, 457
BclI TGATCA 1 cut(s) 64
BcoDI GTCTC 1 cut(s) 551
BfaI CTAG 2 cut(s) 327, 417
BfmI CTRYAG 2 cut(s) 377, 578
BfrI CTTAAG 1 cut(s) 200
BfuAI ACCTGC 1 cut(s) 460
BisI GCNGC 3 cut(s) 32, 156, 578
BlsI GCNGC 3 cut(s) 33, 157, 579
BmgT120I GGNCC 1 cut(s) 72
BmrI ACTGGG 1 cut(s) 79
BmuI ACTGGG 1 cut(s) 79
BpiI GAAGAC 1 cut(s) 185
BpuEI CTTGAG 2 cut(s) 115, 376
BsaAI YACGTR 1 cut(s) 523
BsaJI CCNNGG 1 cut(s) 316
BsaXI ACNNNNNCTCC 2 cut(s) 12, 42
Bse1I ACTGG 1 cut(s) 74
BseDI CCNNGG 1 cut(s) 316
BseGI GGATG 2 cut(s) 468, 615
BseNI ACTGG 1 cut(s) 74
BseRI GAGGAG 1 cut(s) 373
BseSI GKGCMC 2 cut(s) 343, 600
BseXI GCAGC 3 cut(s) 43, 167, 564
BsgI GTGCAG 1 cut(s) 50
BshFI GGCC 3 cut(s) 57, 74, 115
BsiHKAI GWGCWC 2 cut(s) 533, 600
BsiWI CGTACG 1 cut(s) 245
BsmAI GTCTC 1 cut(s) 551
BsnI GGCC 3 cut(s) 57, 74, 115
Bsp1286I GDGCHC 3 cut(s) 343, 533, 600
Bsp143I GATC 4 cut(s) 64, 120, 205, 241
BspANI GGCC 3 cut(s) 57, 74, 115
BspMAI CTGCAG 2 cut(s) 381, 582
BspMI ACCTGC 1 cut(s) 460
BspPI GGATC 1 cut(s) 213
BspTI CTTAAG 1 cut(s) 200
BsrI ACTGG 1 cut(s) 74
BssECI CCNNGG 1 cut(s) 316
BssMI GATC 4 cut(s) 64, 120, 205, 241
BssT1I CCWWGG 1 cut(s) 316
Bst6I CTCTTC 2 cut(s) 233, 534
BstAFI CTTAAG 1 cut(s) 200
BstBAI YACGTR 1 cut(s) 523
BstC8I GCNNGC 2 cut(s) 36, 339
BstF5I GGATG 2 cut(s) 468, 615
BstKTI GATC 4 cut(s) 67, 123, 208, 244
BstMAI GTCTC 1 cut(s) 551
BstMBI GATC 4 cut(s) 64, 120, 205, 241
BstSFI CTRYAG 2 cut(s) 377, 578
BstSLI GKGCMC 2 cut(s) 343, 600
BstV1I GCAGC 3 cut(s) 43, 167, 564
BstV2I GAAGAC 1 cut(s) 185
BstX2I RGATCY 1 cut(s) 205
BstXI CCANNNNNNTGG 1 cut(s) 82
BstYI RGATCY 1 cut(s) 205
BsuRI GGCC 3 cut(s) 57, 74, 115
BtsCI GGATG 2 cut(s) 468, 615
BtsI GCAGTG 1 cut(s) 147
BtsIMutI CAGTG 2 cut(s) 67, 147
BveI ACCTGC 1 cut(s) 460
Cac8I GCNNGC 2 cut(s) 36, 339
Cfr13I GGNCC 1 cut(s) 72
Csp6I GTAC 1 cut(s) 246
CviAII CATG 4 cut(s) 76, 301, 452, 620
CviJI RGCY 8 cut(s) 5, 34, 57, 74, 115, 281, 353, 577
CviKI_1 RGCY 8 cut(s) 5, 34, 57, 74, 115, 281, 353, 577
CviQI GTAC 1 cut(s) 246
DpnI GATC 4 cut(s) 66, 122, 207, 243
DpnII GATC 4 cut(s) 64, 120, 205, 241
EaeI YGGCCR 2 cut(s) 55, 113
Eam1104I CTCTTC 2 cut(s) 233, 534
EarI CTCTTC 2 cut(s) 233, 534
Eco130I CCWWGG 1 cut(s) 316
EcoT14I CCWWGG 1 cut(s) 316
ErhI CCWWGG 1 cut(s) 316
FaeI CATG 4 cut(s) 79, 304, 455, 623
FaiI YATR 7 cut(s) 41, 63, 77, 302, 453, 503, 621
FatI CATG 4 cut(s) 75, 300, 451, 619
FbaI TGATCA 1 cut(s) 64
Fnu4HI GCNGC 3 cut(s) 32, 156, 578
FokI GGATG 2 cut(s) 475, 622
Fsp4HI GCNGC 3 cut(s) 32, 156, 578
FspBI CTAG 2 cut(s) 327, 417
GluI GCNGC 3 cut(s) 32, 156, 578
HaeIII GGCC 3 cut(s) 57, 74, 115
Hin1II CATG 4 cut(s) 79, 304, 455, 623
HincII GTYRAC 1 cut(s) 324
HindII GTYRAC 1 cut(s) 324
HinfI GANTC 5 cut(s) 132, 296, 330, 421, 448
HphI GGTGA 2 cut(s) 404, 412
Hpy166II GTNNAC 2 cut(s) 324, 598
Hpy188I TCNGA 1 cut(s) 16
Hpy188III TCNNGA 1 cut(s) 94
Hpy8I GTNNAC 2 cut(s) 324, 598
HpyAV CCTTC 3 cut(s) 379, 383, 391
HpyCH4IV ACGT 2 cut(s) 522, 634
HpyCH4V TGCA 6 cut(s) 31, 379, 428, 546, 580, 598
HpySE526I ACGT 2 cut(s) 522, 634
Hsp92II CATG 4 cut(s) 79, 304, 455, 623
Ksp22I TGATCA 1 cut(s) 64
Kzo9I GATC 4 cut(s) 64, 120, 205, 241
LmnI GCTCC 1 cut(s) 466
LpnPI CCDG 4 cut(s) 48, 55, 389, 455
Lsp1109I GCAGC 3 cut(s) 43, 167, 564
MaeI CTAG 2 cut(s) 327, 417
MaeII ACGT 2 cut(s) 522, 634
MalI GATC 4 cut(s) 66, 122, 207, 243
MboI GATC 4 cut(s) 64, 120, 205, 241
MboII GAAGA 6 cut(s) 137, 190, 220, 229, 457, 551
MfeI CAATTG 1 cut(s) 429
MflI RGATCY 1 cut(s) 205
MhlI GDGCHC 3 cut(s) 343, 533, 600
MlsI TGGCCA 2 cut(s) 57, 115
MluCI AATT 4 cut(s) 47, 88, 344, 429
MluNI TGGCCA 2 cut(s) 57, 115
MlyI GAGTC 2 cut(s) 339, 415
MnlI CCTC 9 cut(s) 10, 14, 90, 145, 160, 351, 453, 489, 517
Mox20I TGGCCA 2 cut(s) 57, 115
MscI TGGCCA 2 cut(s) 57, 115
MseI TTAA 3 cut(s) 201, 267, 637
MslI CAYNNNNRTG 3 cut(s) 80, 140, 624
Msp20I TGGCCA 2 cut(s) 57, 115
MspCI CTTAAG 1 cut(s) 200
MunI CAATTG 1 cut(s) 429
NdeII GATC 4 cut(s) 64, 120, 205, 241
NlaIII CATG 4 cut(s) 79, 304, 455, 623
OliI CACNNNNGTG 1 cut(s) 140
PaqCI CACCTGC 1 cut(s) 460
PfeI GAWTC 3 cut(s) 132, 296, 448
Pfl23II CGTACG 1 cut(s) 245
PkrI GCNGC 3 cut(s) 33, 157, 579
PleI GAGTC 2 cut(s) 338, 415
PpsI GAGTC 2 cut(s) 338, 415
Ppu21I YACGTR 1 cut(s) 523
Psp1406I AACGTT 1 cut(s) 634
PspLI CGTACG 1 cut(s) 245
PspPI GGNCC 1 cut(s) 72
PstI CTGCAG 2 cut(s) 381, 582
PsuI RGATCY 1 cut(s) 205
RsaI GTAC 1 cut(s) 247
RsaNI GTAC 1 cut(s) 246
RseI CAYNNNNRTG 3 cut(s) 80, 140, 624
SaqAI TTAA 3 cut(s) 201, 267, 637
SatI GCNGC 3 cut(s) 32, 156, 578
Sau3AI GATC 4 cut(s) 64, 120, 205, 241
Sau96I GGNCC 1 cut(s) 72
SchI GAGTC 2 cut(s) 339, 415
SduI GDGCHC 3 cut(s) 343, 533, 600
SfcI CTRYAG 2 cut(s) 377, 578
SmiMI CAYNNNNRTG 3 cut(s) 80, 140, 624
SmlI CTYRAG 3 cut(s) 94, 200, 355
SmoI CTYRAG 3 cut(s) 94, 200, 355
Sse9I AATT 4 cut(s) 47, 88, 344, 429
SspI AATATT 2 cut(s) 289, 492
SspMI CTAG 2 cut(s) 327, 417
StyI CCWWGG 1 cut(s) 316
TaiI ACGT 2 cut(s) 525, 637
TaqI TCGA 2 cut(s) 123, 483
TasI AATT 4 cut(s) 47, 88, 344, 429
TfiI GAWTC 3 cut(s) 132, 296, 448
Tru1I TTAA 3 cut(s) 201, 267, 637
Tru9I TTAA 3 cut(s) 201, 267, 637
TscAI CASTG 2 cut(s) 74, 147
TseI GCWGC 3 cut(s) 31, 155, 577
TspDTI ATGAA 7 cut(s) 204, 317, 398, 420, 440, 458, 626
TspGWI ACGGA 1 cut(s) 630
TspRI CASTG 2 cut(s) 74, 147
Vha464I CTTAAG 1 cut(s) 200
VneI GTGCAC 1 cut(s) 596
XapI RAATTY 2 cut(s) 47, 88
XspI CTAG 2 cut(s) 327, 417
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.