Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0000411

Physical Location & Seq

Genomic Coordinates Reverse (-)

68830174 .. 68832258

Gene Structure 2085 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG397300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 597 bp

ATGGATGTCATTGTGGCCGGGGTTGGGGTTGCCATTTGTGACGTTAGAGATAATCTGATTTTGGATGCCAAGAAGAATCTGGAGGTGTTTGGTGGTGGTGAGGTACTAAGCAATGAGGCTGCTGAGCTTGAGGCTCTTATTGAATGGCTCAGTACAACTCTCACTCTGGACTTGAGAAATGTCACATTTTTCTGTGATAACAACAAGCTTTACAAATATTCTCCCAAAACCTCTCTCTCTCTCATCATAGCCACCCCTCTGTACCACGACGACCTCCACACCATTCTCTTCGAGCAACGCCGAGAGCTCATGGCCTCCAAAACCCTAGACTCCGAACTCGACATCGCCTTAAGTCTCCAAATGCAAGAAGCCATGACTGCCTCCCTCTCTCAACAGCCCTCGTCTTCGCTCCCTCCTCTACCTCCGCCTCCGTCGCTGCCGCCCATCCACGACGAATACGACAACGTATTGGACCTCGCCGTTGCGCTTATGCTCGAGGACGTCCAGAAATTCGCGCAGGAATACGACGACCACGAGCGGTCCCTCTTCGAAATAAGGAAGGCAAAAGAATACCTTGACCGTCGGATTCATGATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000151 GO:0000209 GO:0003674 GO:0003824 GO:0004842 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006464 GO:0006807 GO:0008150 GO:0008152 GO:0009653 GO:0009893 GO:0009894 GO:0009896 GO:0009987 GO:0010604 GO:0016567 GO:0016740 GO:0019222 GO:0019538 GO:0019787 GO:0019899 GO:0030154 GO:0030162 GO:0030435 GO:0031323 GO:0031325 GO:0031329 GO:0031331 GO:0031624 GO:0032268 GO:0032270 GO:0032434 GO:0032436 GO:0032446 GO:0032502 GO:0032991 GO:0036211 GO:0042176 GO:0043170 GO:0043412 GO:0043934 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044390 GO:0044424 GO:0044464 GO:0045732 GO:0045862 GO:0048518 GO:0048522 GO:0048646 GO:0048856 GO:0048869 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051246 GO:0051247 GO:0060255 GO:0061136 GO:0061630 GO:0061659 GO:0065007 GO:0070647 GO:0071704 GO:0080090 GO:0140096 GO:1901564 GO:1901800 GO:1902494 GO:1903050 GO:1903052 GO:1903362 GO:1903364 GO:1990234 GO:2000058 GO:2000060

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

IBR RVT_3 zf-C3HC4

Protein Analysis

198

Amino Acids

22.33

Weight (kDa)

4.53

Isoelectric Point (pI)

55.36

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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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0000411)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G45470 AT3G45555 AT5G60250
fragaria_vesca	FvH4_3g33450 FvH4_3g33450 FvH4_3g33450 FvH4_3g33450 FvH4_3g33450 FvH4_3g33470 FvH4_3g33471 FvH4_3g33480 FvH4_3g33480
malus_domestica	MD03G1130800.v1.1 MD11G1125600.v1.1 MD11G1125700.v1.1 MD11G1125800.v1.1 MD11G1126100.v1.1 MD11G1152600.v1.1
prunus_persica	Prupe.6G094100_v2.0.a1 Prupe.6G094100_v2.0.a1 Prupe.6G094200_v2.0.a1 Prupe.6G094500_v2.0.a1 Prupe.6G094500_v2.0.a1 Prupe.6G115600_v2.0.a1 Prupe.6G115700_v2.0.a1 Prupe.6G115700_v2.0.a1 Prupe.6G115700_v2.0.a1 Prupe.6G115700_v2.0.a1
pyrus_communis	pycom11g10590 pycom11g10600 pycom11g10620 pycom11g10640 pycom11g12510
rosa_chinensis	RchiOBHm_Chr5g0060811 RchiOBHm_Chr5g0060821 RchiOBHm_Chr5g0060851 RchiOBHm_Chr5g0060881 RchiOBHm_Chr5g0060891
rosa_laevigata	RLG00000035404 RLG00000035405 RLG00000035407 RLG00000035408
rosa_multiflora	Rmu_sc0000420.1_g000048 Rmu_sc0000420.1_g000049 Rmu_sc0000727.1_g000006 Rmu_sc0000727.1_g000007 Rmu_sc0000727.1_g000024 Rmu_sc0000727.1_g000025 Rmu_sc0024212.1_g000001 Rmu_sc0024212.1_g000003 Rmu_sc0027900.1_g000003 Rmu_sc0030258.1_g000001
rosa_roxburghii	Rroxscaffold_1G00019780 Rroxscaffold_1G00019790 Rroxscaffold_1G00019800 Rroxscaffold_1G00019810 Rroxscaffold_1G00019820 Rroxscaffold_1G00019840 Rroxscaffold_1G00019850
rosa_rugosa	Rorug05G0334200 Rorug05G0334300 Rorug05G0334400 Rorug05G0334500 Rorug05G0334600 Rorug05G0334700
rosa_samantha	Rh4BG359600 Rh4CG373900 Rh5AG397000 Rh5AG397100 Rh5AG397200 Rh5AG397300 Rh5AG397400 Rh5AG397500 Rh5AG397600 Rh5AG397700 Rh5BG409300 Rh5BG409400 Rh5BG409800 Rh5BG409900 Rh5BG410000 Rh5BG410100 Rh5CG434100 Rh5CG434200 Rh5CG434600 Rh5CG434700 Rh5CG434800 Rh5CG434900 Rh5CG435000 Rh5DG424100 Rh5DG424200 Rh5DG424400 Rh5DG424500 Rh5DG424600 Rh5DG424800
rosa_wichuraiana	Rw5G037420 Rw5G037430 Rw5G037480 Rw5G037490 Rw5G037500

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	504
AccBSI	CCGCTC	1 cut(s)	538
AccII	CGCG	1 cut(s)	515
AciI	CCGC	3 cut(s)	425, 440, 538
AcoI	YGGCCR	1 cut(s)	15
AcsI	RAATTY	1 cut(s)	509
AcyI	GRCGYC	1 cut(s)	501
AfaI	GTAC	3 cut(s)	105, 154, 263
AfiI	CCNNNNNNNGG	1 cut(s)	24
AflII	CTTAAG	1 cut(s)	349
AgsI	TTSAA	1 cut(s)	143
AluBI	AGCT	3 cut(s)	127, 208, 307
AluI	AGCT	3 cut(s)	127, 208, 307
Alw21I	GWGCWC	1 cut(s)	309
Alw26I	GTCTC	1 cut(s)	359
Ama87I	CYCGRG	1 cut(s)	494
AoxI	GGCC	2 cut(s)	15, 312
ApeKI	GCWGC	2 cut(s)	119, 436
ApoI	RAATTY	1 cut(s)	509
AspLEI	GCGC	2 cut(s)	487, 517
AspS9I	GGNCC	2 cut(s)	472, 540
AsuC2I	CCSGG	1 cut(s)	19
AsuHPI	GGTGA	1 cut(s)	110
AsuII	TTCGAA	1 cut(s)	549
AvaI	CYCGRG	1 cut(s)	494
AvaII	GGWCC	2 cut(s)	472, 540
BanII	GRGCYC	1 cut(s)	309
BauI	CACGAG	1 cut(s)	533
BbsI	GAAGAC	1 cut(s)	396
Bbv12I	GWGCWC	1 cut(s)	309
BbvI	GCAGC	2 cut(s)	106, 423
BccI	CCATC	1 cut(s)	452
BceAI	ACGGC	1 cut(s)	464
BcnI	CCSGG	1 cut(s)	19
BcoDI	GTCTC	1 cut(s)	359
BfaI	CTAG	1 cut(s)	326
BfrI	CTTAAG	1 cut(s)	349
BisI	GCNGC	3 cut(s)	120, 437, 440
BlpI	GCTNAGC	1 cut(s)	123
BlsI	GCNGC	3 cut(s)	121, 438, 441
Bme1390I	CCNGG	1 cut(s)	19
Bme18I	GGWCC	2 cut(s)	472, 540
BmeT110I	CYCGRG	1 cut(s)	494
BmgT120I	GGNCC	2 cut(s)	472, 540
BmiI	GGNNCC	1 cut(s)	542
BmrFI	CCNGG	1 cut(s)	19
BmsI	GCATC	1 cut(s)	55
BpiI	GAAGAC	1 cut(s)	396
BpmI	CTGGAG	1 cut(s)	101
Bpu1102I	GCTNAGC	1 cut(s)	123
Bpu14I	TTCGAA	1 cut(s)	549
BpuEI	CTTGAG	2 cut(s)	149, 193
BpuMI	CCSGG	1 cut(s)	19
BsaHI	GRCGYC	1 cut(s)	501
BsaJI	CCNNGG	1 cut(s)	18
Bsc4I	CCNNNNNNNGG	1 cut(s)	24
Bse3DI	GCAATG	1 cut(s)	118
BseDI	CCNNGG	1 cut(s)	18
BseGI	GGATG	3 cut(s)	10, 70, 444
BseLI	CCNNNNNNNGG	1 cut(s)	24
BseMI	GCAATG	1 cut(s)	118
BseMII	CTCAG	2 cut(s)	114, 163
BseRI	GAGGAG	1 cut(s)	405
BseXI	GCAGC	2 cut(s)	106, 423
Bsh1236I	CGCG	1 cut(s)	515
BshFI	GGCC	2 cut(s)	17, 314
BsiHKAI	GWGCWC	1 cut(s)	309
BsiHKCI	CYCGRG	1 cut(s)	494
BsiSI	CCGG	1 cut(s)	18
BslFI	GGGAC	1 cut(s)	526
BslI	CCNNNNNNNGG	1 cut(s)	24
BsmAI	GTCTC	1 cut(s)	359
BsmFI	GGGAC	1 cut(s)	526
BsnI	GGCC	2 cut(s)	17, 314
BsoBI	CYCGRG	1 cut(s)	494
Bsp119I	TTCGAA	1 cut(s)	549
Bsp1286I	GDGCHC	1 cut(s)	309
Bsp1720I	GCTNAGC	1 cut(s)	123
BspACI	CCGC	3 cut(s)	425, 440, 538
BspANI	GGCC	2 cut(s)	17, 314
BspCNI	CTCAG	2 cut(s)	115, 162
BspFNI	CGCG	1 cut(s)	515
BspHI	TCATGA	1 cut(s)	589
BspLI	GGNNCC	1 cut(s)	542
BspT104I	TTCGAA	1 cut(s)	549
BspTI	CTTAAG	1 cut(s)	349
BsrBI	CCGCTC	1 cut(s)	538
BsrDI	GCAATG	1 cut(s)	118
BssECI	CCNNGG	1 cut(s)	18
BssNI	GRCGYC	1 cut(s)	501
BssSI	CACGAG	1 cut(s)	533
Bst2BI	CACGAG	1 cut(s)	533
Bst4CI	ACNGT	1 cut(s)	581
Bst6I	CTCTTC	2 cut(s)	293, 551
BstACI	GRCGYC	1 cut(s)	501
BstAFI	CTTAAG	1 cut(s)	349
BstBI	TTCGAA	1 cut(s)	549
BstDEI	CTNAG	3 cut(s)	107, 123, 149
BstF5I	GGATG	3 cut(s)	10, 70, 444
BstFNI	CGCG	1 cut(s)	515
BstHHI	GCGC	2 cut(s)	487, 517
BstMAI	GTCTC	1 cut(s)	359
BstMWI	GCNNNNNNNGC	2 cut(s)	377, 433
BstSCI	CCNGG	1 cut(s)	17
BstUI	CGCG	1 cut(s)	515
BstV1I	GCAGC	2 cut(s)	106, 423
BstV2I	GAAGAC	1 cut(s)	396
BsuRI	GGCC	2 cut(s)	17, 314
BtgZI	GCGATG	1 cut(s)	328
BtsCI	GGATG	3 cut(s)	10, 70, 444
CciI	TCATGA	1 cut(s)	589
CfoI	GCGC	2 cut(s)	487, 517
Cfr13I	GGNCC	2 cut(s)	472, 540
Csp6I	GTAC	3 cut(s)	104, 153, 262
CviAII	CATG	3 cut(s)	310, 373, 590
CviQI	GTAC	3 cut(s)	104, 153, 262
DdeI	CTNAG	3 cut(s)	107, 123, 149
EaeI	YGGCCR	1 cut(s)	15
Eam1104I	CTCTTC	2 cut(s)	293, 551
EarI	CTCTTC	2 cut(s)	293, 551
EciI	GGCGGA	1 cut(s)	414
Ecl136II	GAGCTC	1 cut(s)	307
Eco24I	GRGCYC	1 cut(s)	309
Eco47I	GGWCC	2 cut(s)	472, 540
Eco53kI	GAGCTC	1 cut(s)	307
Eco88I	CYCGRG	1 cut(s)	494
EcoICRI	GAGCTC	1 cut(s)	307
EcoT38I	GRGCYC	1 cut(s)	309
FaeI	CATG	3 cut(s)	313, 376, 593
FaiI	YATR	5 cut(s)	248, 311, 374, 491, 591
FalI	AAGNNNNNCTT	2 cut(s)	558, 590
FaqI	GGGAC	1 cut(s)	526
FatI	CATG	3 cut(s)	309, 372, 589
Fnu4HI	GCNGC	3 cut(s)	120, 437, 440
FokI	GGATG	3 cut(s)	17, 77, 431
FriOI	GRGCYC	1 cut(s)	309
Fsp4HI	GCNGC	3 cut(s)	120, 437, 440
FspBI	CTAG	1 cut(s)	326
GlaI	GCGC	2 cut(s)	486, 516
GluI	GCNGC	3 cut(s)	120, 437, 440
GsuI	CTGGAG	1 cut(s)	101
HaeIII	GGCC	2 cut(s)	17, 314
HapII	CCGG	1 cut(s)	18
HhaI	GCGC	2 cut(s)	487, 517
Hin1I	GRCGYC	1 cut(s)	501
Hin1II	CATG	3 cut(s)	313, 376, 593
Hin6I	GCGC	2 cut(s)	485, 515
HinP1I	GCGC	2 cut(s)	485, 515
HindIII	AAGCTT	1 cut(s)	206
HinfI	GANTC	3 cut(s)	76, 329, 586
HpaII	CCGG	1 cut(s)	18
HphI	GGTGA	1 cut(s)	110
Hpy188I	TCNGA	3 cut(s)	57, 334, 585
Hpy188III	TCNNGA	4 cut(s)	80, 167, 505, 590
Hpy99I	CGWCG	5 cut(s)	272, 436, 455, 530, 585
HpyAV	CCTTC	1 cut(s)	553
HpyCH4III	ACNGT	1 cut(s)	581
HpyCH4IV	ACGT	3 cut(s)	42, 465, 501
HpyCH4V	TGCA	1 cut(s)	364
HpyF10VI	GCNNNNNNNGC	2 cut(s)	377, 433
HpyF3I	CTNAG	3 cut(s)	107, 123, 149
HpySE526I	ACGT	3 cut(s)	42, 465, 501
Hsp92I	GRCGYC	1 cut(s)	501
Hsp92II	CATG	3 cut(s)	313, 376, 593
HspAI	GCGC	2 cut(s)	485, 515
LmnI	GCTCC	1 cut(s)	414
LpnPI	CCDG	5 cut(s)	31, 65, 152, 503, 518
Lsp1109I	GCAGC	2 cut(s)	106, 423
LweI	GCATC	1 cut(s)	55
MaeI	CTAG	1 cut(s)	326
MaeII	ACGT	3 cut(s)	42, 465, 501
MaeIII	GTNAC	2 cut(s)	38, 181
MbiI	CCGCTC	1 cut(s)	538
MboII	GAAGA	4 cut(s)	85, 280, 396, 538
MhlI	GDGCHC	1 cut(s)	309
MluCI	AATT	1 cut(s)	509
MlyI	GAGTC	1 cut(s)	323
MmeI	TCCRAC	1 cut(s)	563
MseI	TTAA	1 cut(s)	350
MspCI	CTTAAG	1 cut(s)	349
MspI	CCGG	1 cut(s)	18
MspR9I	CCNGG	1 cut(s)	19
MvnI	CGCG	1 cut(s)	515
MwoI	GCNNNNNNNGC	2 cut(s)	377, 433
NciI	CCSGG	1 cut(s)	19
NlaIII	CATG	3 cut(s)	313, 376, 593
NlaIV	GGNNCC	1 cut(s)	542
NmeAIII	GCCGAG	1 cut(s)	326
NmuCI	GTSAC	2 cut(s)	38, 181
NspV	TTCGAA	1 cut(s)	549
PaeR7I	CTCGAG	1 cut(s)	494
PagI	TCATGA	1 cut(s)	589
PcsI	WCGNNNNNNNCGW	2 cut(s)	456, 531
PfeI	GAWTC	2 cut(s)	76, 586
PkrI	GCNGC	3 cut(s)	121, 438, 441
PleI	GAGTC	1 cut(s)	323
PpsI	GAGTC	1 cut(s)	323
Psp124BI	GAGCTC	1 cut(s)	309
PspN4I	GGNNCC	1 cut(s)	542
PspPI	GGNCC	2 cut(s)	472, 540
PspXI	VCTCGAGB	1 cut(s)	494
RsaI	GTAC	3 cut(s)	105, 154, 263
RsaNI	GTAC	3 cut(s)	104, 153, 262
SacI	GAGCTC	1 cut(s)	309
SaqAI	TTAA	1 cut(s)	350
SatI	GCNGC	3 cut(s)	120, 437, 440
Sau96I	GGNCC	2 cut(s)	472, 540
SchI	GAGTC	1 cut(s)	323
ScrFI	CCNGG	1 cut(s)	19
SduI	GDGCHC	1 cut(s)	309
SfaNI	GCATC	1 cut(s)	55
Sfr274I	CTCGAG	1 cut(s)	494
SfuI	TTCGAA	1 cut(s)	549
SinI	GGWCC	2 cut(s)	472, 540
SlaI	CTCGAG	1 cut(s)	494
SmlI	CTYRAG	4 cut(s)	128, 172, 349, 494
SmoI	CTYRAG	4 cut(s)	128, 172, 349, 494
Sse9I	AATT	1 cut(s)	509
SsiI	CCGC	3 cut(s)	425, 440, 538
SspI	AATATT	1 cut(s)	218
SspMI	CTAG	1 cut(s)	326
SstI	GAGCTC	1 cut(s)	309
StyD4I	CCNGG	1 cut(s)	17
TaaI	ACNGT	1 cut(s)	581
TaiI	ACGT	3 cut(s)	45, 468, 504
TaqI	TCGA	4 cut(s)	291, 339, 495, 549
TasI	AATT	1 cut(s)	509
TatI	WGTACW	1 cut(s)	152
TauI	GCSGC	1 cut(s)	442
TfiI	GAWTC	2 cut(s)	76, 586
Tru1I	TTAA	1 cut(s)	350
Tru9I	TTAA	1 cut(s)	350
TseFI	GTSAC	2 cut(s)	38, 181
TseI	GCWGC	2 cut(s)	119, 436
Tsp45I	GTSAC	2 cut(s)	38, 181
TspDTI	ATGAA	1 cut(s)	578
TspGWI	ACGGA	1 cut(s)	420
Vha464I	CTTAAG	1 cut(s)	349
VpaK11BI	GGWCC	2 cut(s)	472, 540
XapI	RAATTY	1 cut(s)	509
XcmI	CCANNNNNNNNNTGG	1 cut(s)	76
XhoI	CTCGAG	1 cut(s)	494
XspI	CTAG	1 cut(s)	326
ZraI	GACGTC	1 cut(s)	502

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.