RchiOBHm_Chr1g0341801

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
OG0000146
Physical Location & Seq
Reverse (-)
33631605 .. 33632519
915 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ56848

Sequence Viewer

Length: 537 bp
ATGACAGACCCGCCTAGTTTGAACACGGTTTTTACATACATCCGCAAGGATGAGTCTCAACAGGAGAGTGTCAAACATGCACAGGTTGAAGCATCTAGCCTAGCCATTCAGTCCAAGTCACCGGCACCGTTCCTTCATCAGCAGAGTTCAGCCCCACTTCTTCAGCAAGGTTTCCCACAAGGCTTCACCAACCGCACTCGTCCTCAATGTTCTTATTGCAACGACCTTGGGCATGTTCGAGAGACATGTTGGAAGCTGAACCCACACCTTAAACCTAAAAAGCAAGGCTATCGTCCTAAGGCGAAAGCAGCAGCTGTTCAATTGGTCCAAGAACCAGACTTCTATGGCGTAGTTGGCCAAGATCATCATACAGCAGGTGGAGTTACTCCTACAGCCTCTATAGCTGGTCGAGGATCTTCTCACCAGGGAGTTAATCGGTCGGGGGTATCTAAGGGGCAGATTGTTCCATCTGGATCAGACATACGTAGGGGAGAAACCAGGAGCACCGTCTCGCGCCGCTTTGACTTTGAATTCTGA
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
Retrotran_gag_2 Retrotran_gag_3 Retrotrans_gag gag_pre-integrs zf-CCHC

Protein Analysis

178

Amino Acids

19.53

Weight (kDa)

9.67

Isoelectric Point (pI)

54.73

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0000146)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g19561 FvH4_1g25371 FvH4_1g25961 FvH4_2g00352 FvH4_2g00861 FvH4_2g04952 FvH4_2g05413 FvH4_2g07531 FvH4_2g08961 FvH4_2g25141 FvH4_2g27292 FvH4_3g18164 FvH4_3g19921 FvH4_3g43870 FvH4_4g14441 FvH4_4g15581 FvH4_4g15582 FvH4_4g16890 FvH4_4g19782 FvH4_4g33444 FvH4_4g33921 FvH4_5g22281 FvH4_5g22282 FvH4_5g32571 FvH4_5g37451 FvH4_5g39631 FvH4_6g04721 FvH4_6g11661 FvH4_6g20571 FvH4_6g32791 FvH4_7g23184
prunus_persica Prupe.1G090900_v2.0.a1 Prupe.1G241200_v2.0.a1 Prupe.1G534100_v2.0.a1 Prupe.3G076700_v2.0.a1 Prupe.4G150800_v2.0.a1 Prupe.4G181800_v2.0.a1 Prupe.4G240900_v2.0.a1 Prupe.4G247600_v2.0.a1 Prupe.6G115900_v2.0.a1 Prupe.6G327500_v2.0.a1 Prupe.8G071700_v2.0.a1
pyrus_communis pycom06g11480 pycom10g08330 pycom15g04320 pycom15g04350 pycom15g12620 pycom2874g00060
rosa_chinensis RchiOBHm_Chr1g0317241 RchiOBHm_Chr1g0341801 RchiOBHm_Chr1g0341931 RchiOBHm_Chr1g0359621 RchiOBHm_Chr2g0113741 RchiOBHm_Chr2g0117261 RchiOBHm_Chr2g0138831 RchiOBHm_Chr2g0141421 RchiOBHm_Chr2g0145281 RchiOBHm_Chr2g0152991 RchiOBHm_Chr3g0448001 RchiOBHm_Chr3g0450981 RchiOBHm_Chr3g0455161 RchiOBHm_Chr3g0457401 RchiOBHm_Chr3g0460001 RchiOBHm_Chr4g0387431 RchiOBHm_Chr4g0388741 RchiOBHm_Chr4g0444201 RchiOBHm_Chr4g0444261 RchiOBHm_Chr5g0010221 RchiOBHm_Chr6g0271721 RchiOBHm_Chr6g0274641 RchiOBHm_Chr6g0294691 RchiOBHm_Chr7g0237031 RchiOBHm_Chr7g0238461 RchiOBHm_Chr7g0239981
rosa_laevigata RLG00000009017
rosa_multiflora Rmu_co7986768.1_g000001 Rmu_co8302239.1_g000001 Rmu_co8485799.1_g000001 Rmu_sc0000061.1_g000013 Rmu_sc0000303.1_g000034 Rmu_sc0000303.1_g000035 Rmu_sc0000315.1_g000017 Rmu_sc0000349.1_g000003 Rmu_sc0000498.1_g000068 Rmu_sc0000508.1_g000014 Rmu_sc0000602.1_g000001 Rmu_sc0000633.1_g000002 Rmu_sc0000638.1_g000030 Rmu_sc0000756.1_g000016 Rmu_sc0000756.1_g000017 Rmu_sc0000785.1_g000037 Rmu_sc0000795.1_g000017 Rmu_sc0000796.1_g000030 Rmu_sc0000863.1_g000023 Rmu_sc0000920.1_g000021 Rmu_sc0000960.1_g000015 Rmu_sc0000982.1_g000102 Rmu_sc0001036.1_g000008 Rmu_sc0001036.1_g000009 Rmu_sc0001643.1_g000029 Rmu_sc0001687.1_g000026 Rmu_sc0001708.1_g000037 Rmu_sc0001768.1_g000015 Rmu_sc0001790.1_g000022 Rmu_sc0002180.1_g000007 Rmu_sc0002211.1_g000006 Rmu_sc0002270.1_g000010 Rmu_sc0002404.1_g000031 Rmu_sc0002858.1_g000016 Rmu_sc0003063.1_g000028 Rmu_sc0003730.1_g000017 Rmu_sc0004087.1_g000020 Rmu_sc0004618.1_g000048 Rmu_sc0004724.1_g000005 Rmu_sc0005167.1_g000036 Rmu_sc0005781.1_g000003 Rmu_sc0005878.1_g000012 Rmu_sc0006011.1_g000003 Rmu_sc0006343.1_g000011 Rmu_sc0006573.1_g000007 Rmu_sc0006599.1_g000007 Rmu_sc0006803.1_g000014 Rmu_sc0006836.1_g000002 Rmu_sc0006849.1_g000002 Rmu_sc0007109.1_g000009 Rmu_sc0009268.1_g000016 Rmu_sc0009618.1_g000017 Rmu_sc0009674.1_g000009 Rmu_sc0010244.1_g000009 Rmu_sc0011151.1_g000004 Rmu_sc0011356.1_g000001 Rmu_sc0011674.1_g000002 Rmu_sc0011778.1_g000016 Rmu_sc0012342.1_g000001 Rmu_sc0012467.1_g000002 Rmu_sc0012574.1_g000003 Rmu_sc0012913.1_g000005 Rmu_sc0013612.1_g000020 Rmu_sc0014824.1_g000001 Rmu_sc0017869.1_g000002 Rmu_sc0018085.1_g000003 Rmu_sc0024789.1_g000001 Rmu_sc0025106.1_g000013 Rmu_sc0034502.1_g000001 Rmu_sc0034547.1_g000001 Rmu_sc0035094.1_g000001 Rmu_sc0035095.1_g000001 Rmu_ssc0000100.1_g000027 Rmu_ssc0000244.1_g000005 Rmu_ssc0000371.1_g000029 Rmu_ssc0000381.1_g000004
rosa_roxburghii Rroxscaffold_1G00015480 Rroxscaffold_1G00023580 Rroxscaffold_1G00039340 Rroxscaffold_1G00047080 Rroxscaffold_2G00095820 Rroxscaffold_2G00125200 Rroxscaffold_2G00128330 Rroxscaffold_3G00270860
rosa_rugosa Rorug06G0120700
rosa_samantha Rh3BG173100 Rh6AG089600 Rh7AG488100 Rh7DG389600
rosa_wichuraiana Rw0G001150 Rw0G001990 Rw0G002010 Rw0G019540 Rw1G013730 Rw1G024110 Rw1G029190 Rw2G018850 Rw2G021090 Rw2G022260 Rw2G023180 Rw2G027280 Rw3G010190 Rw3G020660 Rw3G029380 Rw4G002390 Rw4G002690 Rw4G033260 Rw5G011960 Rw5G023110 Rw5G025250 Rw5G028950 Rw5G033740 Rw5G033950 Rw5G037900 Rw6G009640 Rw6G011620 Rw6G027720 Rw7G010680 Rw7G042070

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 365
Acc36I ACCTGC 1 cut(s) 365
AccB1I GGYRCC 1 cut(s) 124
AccII CGCG 1 cut(s) 514
AciI CCGC 4 cut(s) 11, 43, 193, 517
AclWI GGATC 2 cut(s) 421, 481
AcoI YGGCCR 1 cut(s) 355
AcsI RAATTY 1 cut(s) 530
AcuI CTGAAG 1 cut(s) 146
AflIII ACRYGT 1 cut(s) 245
AgsI TTSAA 4 cut(s) 22, 89, 320, 530
AjnI CCWGG 2 cut(s) 423, 497
AluBI AGCT 3 cut(s) 256, 314, 404
AluI AGCT 3 cut(s) 256, 314, 404
Alw21I GWGCWC 1 cut(s) 506
Alw26I GTCTC 3 cut(s) 60, 236, 514
AlwI GGATC 2 cut(s) 421, 481
AlwNI CAGNNNCTG 1 cut(s) 314
AoxI GGCC 1 cut(s) 355
ApeKI GCWGC 2 cut(s) 308, 311
ApoI RAATTY 1 cut(s) 530
AspLEI GCGC 1 cut(s) 516
AspS9I GGNCC 1 cut(s) 325
AsuHPI GGTGA 3 cut(s) 111, 178, 413
AvaII GGWCC 1 cut(s) 325
AxyI CCTNAGG 1 cut(s) 297
BalI TGGCCA 1 cut(s) 357
BanI GGYRCC 1 cut(s) 124
Bbv12I GWGCWC 1 cut(s) 506
BbvI GCAGC 2 cut(s) 320, 323
BccI CCATC 1 cut(s) 475
BcgI CGANNNNNNTGC 2 cut(s) 272, 306
BciT130I CCWGG 2 cut(s) 425, 499
BcoDI GTCTC 3 cut(s) 60, 236, 514
BfaI CTAG 3 cut(s) 15, 96, 101
BfmI CTRYAG 2 cut(s) 390, 399
BfuAI ACCTGC 1 cut(s) 365
BisI GCNGC 3 cut(s) 309, 312, 517
BlsI GCNGC 3 cut(s) 310, 313, 518
Bme1390I CCNGG 2 cut(s) 425, 499
Bme18I GGWCC 1 cut(s) 325
BmgT120I GGNCC 1 cut(s) 325
BmiI GGNNCC 1 cut(s) 126
BmrFI CCNGG 2 cut(s) 425, 499
BmsI GCATC 1 cut(s) 101
BsaAI YACGTR 1 cut(s) 485
BsaJI CCNNGG 2 cut(s) 226, 424
Bse118I RCCGGY 1 cut(s) 121
Bse21I CCTNAGG 1 cut(s) 297
BseBI CCWGG 2 cut(s) 425, 499
BseDI CCNNGG 2 cut(s) 226, 424
BseGI GGATG 2 cut(s) 39, 55
BseXI GCAGC 2 cut(s) 320, 323
Bsh1236I CGCG 1 cut(s) 514
Bsh1285I CGRYCG 1 cut(s) 440
BshFI GGCC 1 cut(s) 357
BshNI GGYRCC 1 cut(s) 124
BsiEI CGRYCG 1 cut(s) 440
BsiHKAI GWGCWC 1 cut(s) 506
BsiSI CCGG 1 cut(s) 122
BsmAI GTCTC 3 cut(s) 60, 236, 514
BsmBI CGTCTC 1 cut(s) 514
BsnI GGCC 1 cut(s) 357
Bsp1286I GDGCHC 1 cut(s) 506
Bsp143I GATC 3 cut(s) 361, 413, 473
BspACI CCGC 4 cut(s) 11, 43, 193, 517
BspANI GGCC 1 cut(s) 357
BspFNI CGCG 1 cut(s) 514
BspLI GGNNCC 1 cut(s) 126
BspMI ACCTGC 1 cut(s) 365
BspPI GGATC 2 cut(s) 421, 481
BspT107I GGYRCC 1 cut(s) 124
BsrFI RCCGGY 1 cut(s) 121
BssAI RCCGGY 1 cut(s) 121
BssECI CCNNGG 2 cut(s) 226, 424
BssMI GATC 3 cut(s) 361, 413, 473
BssT1I CCWWGG 1 cut(s) 226
Bst2UI CCWGG 2 cut(s) 425, 499
Bst4CI ACNGT 3 cut(s) 28, 129, 508
BstBAI YACGTR 1 cut(s) 485
BstDEI CTNAG 2 cut(s) 297, 450
BstF5I GGATG 2 cut(s) 39, 55
BstFNI CGCG 1 cut(s) 514
BstHHI GCGC 1 cut(s) 516
BstKTI GATC 3 cut(s) 364, 416, 476
BstMAI GTCTC 3 cut(s) 60, 236, 514
BstMBI GATC 3 cut(s) 361, 413, 473
BstMCI CGRYCG 1 cut(s) 440
BstMWI GCNNNNNNNGC 3 cut(s) 308, 354, 401
BstNI CCWGG 2 cut(s) 425, 499
BstNSI RCATGY 3 cut(s) 80, 236, 249
BstSCI CCNGG 2 cut(s) 423, 497
BstSFI CTRYAG 2 cut(s) 390, 399
BstSNI TACGTA 1 cut(s) 485
BstUI CGCG 1 cut(s) 514
BstV1I GCAGC 2 cut(s) 320, 323
BstX2I RGATCY 1 cut(s) 413
BstYI RGATCY 1 cut(s) 413
Bsu36I CCTNAGG 1 cut(s) 297
BsuRI GGCC 1 cut(s) 357
BtsCI GGATG 2 cut(s) 39, 55
BveI ACCTGC 1 cut(s) 365
CaiI CAGNNNCTG 1 cut(s) 314
CfoI GCGC 1 cut(s) 516
Cfr10I RCCGGY 1 cut(s) 121
Cfr13I GGNCC 1 cut(s) 325
CviAII CATG 3 cut(s) 77, 233, 246
DdeI CTNAG 2 cut(s) 297, 450
DpnI GATC 3 cut(s) 363, 415, 475
DpnII GATC 3 cut(s) 361, 413, 473
EaeI YGGCCR 1 cut(s) 355
Eco105I TACGTA 1 cut(s) 485
Eco130I CCWWGG 1 cut(s) 226
Eco47I GGWCC 1 cut(s) 325
Eco57I CTGAAG 1 cut(s) 146
Eco81I CCTNAGG 1 cut(s) 297
EcoRI GAATTC 1 cut(s) 530
EcoRII CCWGG 2 cut(s) 423, 497
EcoT14I CCWWGG 1 cut(s) 226
ErhI CCWWGG 1 cut(s) 226
Esp3I CGTCTC 1 cut(s) 514
FaeI CATG 3 cut(s) 80, 236, 249
FaiI YATR 8 cut(s) 37, 78, 234, 247, 345, 369, 401, 482
FatI CATG 3 cut(s) 76, 232, 245
FauI CCCGC 1 cut(s) 18
Fnu4HI GCNGC 3 cut(s) 309, 312, 517
FokI GGATG 2 cut(s) 26, 62
Fsp4HI GCNGC 3 cut(s) 309, 312, 517
FspBI CTAG 3 cut(s) 15, 96, 101
GlaI GCGC 1 cut(s) 515
GluI GCNGC 3 cut(s) 309, 312, 517
HaeIII GGCC 1 cut(s) 357
HapII CCGG 1 cut(s) 122
HhaI GCGC 1 cut(s) 516
Hin1II CATG 3 cut(s) 80, 236, 249
Hin6I GCGC 1 cut(s) 514
HinP1I GCGC 1 cut(s) 514
HinfI GANTC 1 cut(s) 53
HpaII CCGG 1 cut(s) 122
HphI GGTGA 3 cut(s) 111, 178, 413
Hpy188I TCNGA 2 cut(s) 478, 536
Hpy188III TCNNGA 2 cut(s) 239, 471
HpyAV CCTTC 1 cut(s) 143
HpyCH4III ACNGT 3 cut(s) 28, 129, 508
HpyCH4IV ACGT 1 cut(s) 484
HpyCH4V TGCA 2 cut(s) 80, 219
HpyF10VI GCNNNNNNNGC 3 cut(s) 308, 354, 401
HpyF3I CTNAG 2 cut(s) 297, 450
HpySE526I ACGT 1 cut(s) 484
Hsp92II CATG 3 cut(s) 80, 236, 249
HspAI GCGC 1 cut(s) 514
Kzo9I GATC 3 cut(s) 361, 413, 473
LmnI GCTCC 1 cut(s) 501
Lsp1109I GCAGC 2 cut(s) 320, 323
LweI GCATC 1 cut(s) 101
MaeI CTAG 3 cut(s) 15, 96, 101
MaeII ACGT 1 cut(s) 484
MaeIII GTNAC 2 cut(s) 117, 382
MalI GATC 3 cut(s) 363, 415, 475
MboI GATC 3 cut(s) 361, 413, 473
MboII GAAGA 2 cut(s) 152, 408
MfeI CAATTG 1 cut(s) 320
MflI RGATCY 1 cut(s) 413
MhlI GDGCHC 1 cut(s) 506
MlsI TGGCCA 1 cut(s) 357
MluCI AATT 2 cut(s) 320, 530
MluNI TGGCCA 1 cut(s) 357
MlyI GAGTC 1 cut(s) 62
MmeI TCCRAC 1 cut(s) 230
MnlI CCTC 3 cut(s) 213, 404, 406
Mox20I TGGCCA 1 cut(s) 357
MscI TGGCCA 1 cut(s) 357
MseI TTAA 2 cut(s) 270, 432
Msp20I TGGCCA 1 cut(s) 357
MspA1I CMGCKG 1 cut(s) 314
MspI CCGG 1 cut(s) 122
MspR9I CCNGG 2 cut(s) 425, 499
MunI CAATTG 1 cut(s) 320
MvaI CCWGG 2 cut(s) 425, 499
MvnI CGCG 1 cut(s) 514
MwoI GCNNNNNNNGC 3 cut(s) 308, 354, 401
NdeII GATC 3 cut(s) 361, 413, 473
NlaIII CATG 3 cut(s) 80, 236, 249
NlaIV GGNNCC 1 cut(s) 126
NmuCI GTSAC 1 cut(s) 117
NspI RCATGY 3 cut(s) 80, 236, 249
PaqCI CACCTGC 1 cut(s) 365
PciI ACATGT 1 cut(s) 245
PkrI GCNGC 3 cut(s) 310, 313, 518
PleI GAGTC 1 cut(s) 61
PpsI GAGTC 1 cut(s) 61
Ppu21I YACGTR 1 cut(s) 485
PscI ACATGT 1 cut(s) 245
Psp6I CCWGG 2 cut(s) 423, 497
PspGI CCWGG 2 cut(s) 423, 497
PspN4I GGNNCC 1 cut(s) 126
PspPI GGNCC 1 cut(s) 325
PstNI CAGNNNCTG 1 cut(s) 314
PsuI RGATCY 1 cut(s) 413
PvuII CAGCTG 1 cut(s) 314
SaqAI TTAA 2 cut(s) 270, 432
SatI GCNGC 3 cut(s) 309, 312, 517
Sau3AI GATC 3 cut(s) 361, 413, 473
Sau96I GGNCC 1 cut(s) 325
SchI GAGTC 1 cut(s) 62
ScrFI CCNGG 2 cut(s) 425, 499
SduI GDGCHC 1 cut(s) 506
SfaNI GCATC 1 cut(s) 101
SfcI CTRYAG 2 cut(s) 390, 399
SinI GGWCC 1 cut(s) 325
SnaBI TACGTA 1 cut(s) 485
Sse9I AATT 2 cut(s) 320, 530
SsiI CCGC 4 cut(s) 11, 43, 193, 517
SspMI CTAG 3 cut(s) 15, 96, 101
StyD4I CCNGG 2 cut(s) 423, 497
StyI CCWWGG 1 cut(s) 226
TaaI ACNGT 3 cut(s) 28, 129, 508
TaiI ACGT 1 cut(s) 487
TaqI TCGA 2 cut(s) 238, 409
TaqII GACCGA 1 cut(s) 426
TasI AATT 2 cut(s) 320, 530
TauI GCSGC 1 cut(s) 519
Tru1I TTAA 2 cut(s) 270, 432
Tru9I TTAA 2 cut(s) 270, 432
TseFI GTSAC 1 cut(s) 117
TseI GCWGC 2 cut(s) 308, 311
Tsp45I GTSAC 1 cut(s) 117
TspDTI ATGAA 1 cut(s) 125
VpaK11BI GGWCC 1 cut(s) 325
XapI RAATTY 1 cut(s) 530
XceI RCATGY 3 cut(s) 80, 236, 249
XspI CTAG 3 cut(s) 15, 96, 101
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.