Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0001387

Physical Location & Seq

Genomic Coordinates Reverse (-)

46207841 .. 46210103

Gene Structure 2263 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00425220.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 807 bp

ATGGATCAGCAAGGACATGGGCAACCCCAATCGATGGGCATGGTAGGTAGTGGAGGTCAGTTGGCATATGGGACTGCTCCGTATCAGCATACTCAAATTGTAGGGAGTCCGAATCCTGCAACAGTTGGTGCGCCAGTTGGAGGCATTCAATCTAGTAGTCAATCTGCCGGAGCTCAGCTTCAACAGCATCAACTTGCTTATCAGCACATTCACCACCAGCAGCAGCAACAACTTCAACAACAACTGCAAGGTTTCTGGGCAAATCAGTTTCAAGAGATTGAGAAGGTAACTGATTTCAAGAACCATAGCCTTCCTCTAGCAAGGATCAAGAAGATTATGAAAGCTGATGAGGATGTGAGAATGATATCAGCTGAGGCACCTGTGATCTTTGCAAGGGCATGTGAAATGTTCATCTTGGAGTTGACCTTGCGGTCTTGGAATCACACAGAAGAGAATAAAAGGAGGACACTTCAAAAGAATGACATCGCAGCTGCAATCACAAGGACTGATATCTTTGATTTCTTGGTAGACATCGTGCCGAGAGAGGATCTGAAAGATGAAGTCCTTGCATCCATTCCAAGGGGAACGGTTTCTGTTGGGGCTGCTGATGCACTTCCTCCGTACTGCTATATGCCACCCCAGCATGGACCTCAGGTAGGGGCTCCTGGGATGATCATGGGCAAGCCTATGATGGACCCATCTATGTATGGGCAACAGTCTCACCCCTACATGGCTCCGCAAATGTGGCCACAGGCACCGGAGCAGCAGCAGCAGCAGCAACAGCAACAGTCACCATCTGATCATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0001101 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0003712 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0006355 GO:0007154 GO:0007165 GO:0007275 GO:0008150 GO:0009314 GO:0009416 GO:0009628 GO:0009648 GO:0009719 GO:0009725 GO:0009737 GO:0009738 GO:0009739 GO:0009740 GO:0009755 GO:0009791 GO:0009889 GO:0009987 GO:0010029 GO:0010033 GO:0010099 GO:0010228 GO:0010468 GO:0010476 GO:0010556 GO:0019219 GO:0019222 GO:0022414 GO:0023052 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0032870 GO:0033993 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044444 GO:0044464 GO:0048518 GO:0048519 GO:0048571 GO:0048573 GO:0048574 GO:0048579 GO:0048580 GO:0048581 GO:0048582 GO:0048583 GO:0048584 GO:0048585 GO:0048586 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051093 GO:0051094 GO:0051171 GO:0051239 GO:0051240 GO:0051241 GO:0051252 GO:0051716 GO:0060255 GO:0061458 GO:0065007 GO:0070887 GO:0071215 GO:0071229 GO:0071310 GO:0071370 GO:0071396 GO:0071495 GO:0080090 GO:0097159 GO:0097305 GO:0097306 GO:0140110 GO:1900140 GO:1901363 GO:1901700 GO:1901701 GO:1903506 GO:2000026 GO:2000028 GO:2000030 GO:2000112 GO:2000241 GO:2000242 GO:2000306 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04612 ko05152 map04612 map05152

Pfam Domains

Protein Families

CBFD_NFYB_HMF

Protein Analysis

268

Amino Acids

29.79

Weight (kDa)

5.96

Isoelectric Point (pI)

68.96

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Histone	PF00125	95 - 166	1.7e-17	Core histone H2A/H2B/H3/H4 domain
CBFD_NFYB_HMF	PF00808	103 - 166	3.4e-17	Histone-like transcription factor (CBF/NF-Y) and archaeal histone

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: OG0001387)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G08970 AT1G08970 AT1G08970 AT1G08970 AT1G54830 AT1G54830 AT1G54830
fragaria_vesca	FvH4_4g14750 FvH4_6g05540 FvH4_6g05540
malus_domestica	MD04G1207500.v1.1 MD12G1221800.v1.1 MD13G1185200.v1.1 MD16G1185900.v1.1
prunus_persica	Prupe.1G152500_v2.0.a1 Prupe.1G152500_v2.0.a1 Prupe.1G152500_v2.0.a1 Prupe.1G152500_v2.0.a1 Prupe.1G152500_v2.0.a1 Prupe.1G152500_v2.0.a1 Prupe.6G328500_v2.0.a1 Prupe.6G328500_v2.0.a1 Prupe.6G328500_v2.0.a1
pyrus_communis	pycom04g18370 pycom12g20790 pycom13g15980 pycom16g15560
rosa_chinensis	RchiOBHm_Chr3g0454311 RchiOBHm_Chr4g0417851
rosa_laevigata	RLG00000007894 RLG00000025463
rosa_multiflora	Rmu_sc0001340.1_g000002 Rmu_sc0004911.1_g000014 Rmu_sc0005844.1_g000004 Rmu_sc0007543.1_g000006
rosa_roxburghii	Rroxscaffold_165G00437130 Rroxscaffold_5G00361270 Rroxscaffold_6G00425220
rosa_rugosa	Rorug02G0654100 Rorug04G0149700.1 Rorug04G0149800
rosa_samantha	Rh3AG058100 Rh3BG059800 Rh3CG059000 Rh3CG291100 Rh3DG060300 Rh4AG212100 Rh4BG218900 Rh4CG223100 Rh4DG209900
rosa_wichuraiana	Rw3G004450 Rw3G023190 Rw4G017990

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	430
AccB1I	GGYRCC	2 cut(s)	376, 754
AccB7I	CCANNNNNTGG	1 cut(s)	34
AccI	GTMKAC	1 cut(s)	528
AciI	CCGC	2 cut(s)	430, 737
AclWI	GGATC	3 cut(s)	12, 332, 555
AcoI	YGGCCR	1 cut(s)	746
AfaI	GTAC	1 cut(s)	623
AfiI	CCNNNNNNNGG	6 cut(s)	34, 140, 579, 644, 656, 730
AgsI	TTSAA	6 cut(s)	149, 182, 236, 272, 298, 473
AjnI	CCWGG	1 cut(s)	664
AluBI	AGCT	5 cut(s)	173, 178, 344, 371, 491
AluI	AGCT	5 cut(s)	173, 178, 344, 371, 491
Alw21I	GWGCWC	1 cut(s)	175
Alw26I	GTCTC	1 cut(s)	723
AlwI	GGATC	3 cut(s)	12, 332, 555
AoxI	GGCC	1 cut(s)	746
Asp700I	GAANNNNTTC	1 cut(s)	589
AspLEI	GCGC	1 cut(s)	133
AspS9I	GGNCC	2 cut(s)	647, 694
AsuHPI	GGTGA	3 cut(s)	203, 713, 783
AvaII	GGWCC	2 cut(s)	647, 694
AxyI	CCTNAGG	1 cut(s)	651
BalI	TGGCCA	1 cut(s)	748
BanI	GGYRCC	2 cut(s)	376, 754
BanII	GRGCYC	2 cut(s)	175, 664
Bbv12I	GWGCWC	1 cut(s)	175
BbvCI	CCTCAGC	1 cut(s)	372
BccI	CCATC	4 cut(s)	28, 685, 706, 802
BciT130I	CCWGG	1 cut(s)	666
BclI	TGATCA	2 cut(s)	672, 799
BcoDI	GTCTC	1 cut(s)	723
BfaI	CTAG	2 cut(s)	153, 317
BlpI	GCTNAGC	1 cut(s)	174
Bme1390I	CCNGG	1 cut(s)	666
Bme18I	GGWCC	2 cut(s)	647, 694
BmgT120I	GGNCC	2 cut(s)	647, 694
BmiI	GGNNCC	5 cut(s)	378, 663, 696, 735, 756
BmrFI	CCNGG	1 cut(s)	666
BmsI	GCATC	3 cut(s)	196, 578, 598
Bpu10I	CCTNAGC	1 cut(s)	372
Bpu1102I	GCTNAGC	1 cut(s)	174
Bsa29I	ATCGAT	1 cut(s)	32
BsaJI	CCNNGG	2 cut(s)	578, 665
BsaWI	WCCGGW	1 cut(s)	757
Bsc4I	CCNNNNNNNGG	6 cut(s)	34, 140, 579, 644, 656, 730
Bse1I	ACTGG	1 cut(s)	134
Bse21I	CCTNAGG	1 cut(s)	651
BseBI	CCWGG	1 cut(s)	666
BseCI	ATCGAT	1 cut(s)	32
BseDI	CCNNGG	2 cut(s)	578, 665
BseGI	GGATG	3 cut(s)	358, 569, 675
BseLI	CCNNNNNNNGG	6 cut(s)	34, 140, 579, 644, 656, 730
BseMII	CTCAG	3 cut(s)	188, 363, 665
BseNI	ACTGG	1 cut(s)	134
BseYI	CCCAGC	1 cut(s)	639
BshFI	GGCC	1 cut(s)	748
BshNI	GGYRCC	2 cut(s)	376, 754
BshVI	ATCGAT	1 cut(s)	32
BsiHKAI	GWGCWC	1 cut(s)	175
BsiSI	CCGG	2 cut(s)	168, 758
BslFI	GGGAC	1 cut(s)	85
BslI	CCNNNNNNNGG	6 cut(s)	34, 140, 579, 644, 656, 730
BsmAI	GTCTC	1 cut(s)	723
BsmFI	GGGAC	1 cut(s)	85
BsmI	GAATGC	1 cut(s)	144
BsnI	GGCC	1 cut(s)	748
Bsp1286I	GDGCHC	2 cut(s)	175, 664
Bsp143I	GATC	6 cut(s)	4, 324, 384, 547, 672, 799
Bsp1720I	GCTNAGC	1 cut(s)	174
BspACI	CCGC	2 cut(s)	430, 737
BspANI	GGCC	1 cut(s)	748
BspCNI	CTCAG	3 cut(s)	187, 364, 664
BspDI	ATCGAT	1 cut(s)	32
BspLI	GGNNCC	5 cut(s)	378, 663, 696, 735, 756
BspPI	GGATC	3 cut(s)	12, 332, 555
BspT107I	GGYRCC	2 cut(s)	376, 754
BsrI	ACTGG	1 cut(s)	134
BssECI	CCNNGG	2 cut(s)	578, 665
BssMI	GATC	6 cut(s)	4, 324, 384, 547, 672, 799
BssT1I	CCWWGG	1 cut(s)	578
Bst2UI	CCWGG	1 cut(s)	666
Bst4CI	ACNGT	4 cut(s)	124, 589, 717, 789
Bst6I	CTCTTC	1 cut(s)	444
BstC8I	GCNNGC	1 cut(s)	683
BstDEI	CTNAG	3 cut(s)	174, 372, 651
BstENI	CCTNNNNNAGG	1 cut(s)	654
BstF5I	GGATG	3 cut(s)	358, 569, 675
BstHHI	GCGC	1 cut(s)	133
BstKTI	GATC	6 cut(s)	7, 327, 387, 550, 675, 802
BstMAI	GTCTC	1 cut(s)	723
BstMBI	GATC	6 cut(s)	4, 324, 384, 547, 672, 799
BstMWI	GCNNNNNNNGC	8 cut(s)	184, 608, 640, 745, 769, 772, 775, 781
BstNI	CCWGG	1 cut(s)	666
BstNSI	RCATGY	1 cut(s)	402
BstSCI	CCNGG	1 cut(s)	664
BstX2I	RGATCY	1 cut(s)	547
BstYI	RGATCY	1 cut(s)	547
Bsu15I	ATCGAT	1 cut(s)	32
Bsu36I	CCTNAGG	1 cut(s)	651
BsuRI	GGCC	1 cut(s)	748
BsuTUI	ATCGAT	1 cut(s)	32
BtgZI	GCGATG	1 cut(s)	469
BtsCI	GGATG	3 cut(s)	358, 569, 675
Cac8I	GCNNGC	1 cut(s)	683
CfoI	GCGC	1 cut(s)	133
Cfr13I	GGNCC	2 cut(s)	647, 694
ClaI	ATCGAT	1 cut(s)	32
Csp6I	GTAC	1 cut(s)	622
CviAII	CATG	6 cut(s)	17, 40, 399, 644, 676, 730
CviQI	GTAC	1 cut(s)	622
DdeI	CTNAG	3 cut(s)	174, 372, 651
DpnI	GATC	6 cut(s)	6, 326, 386, 549, 674, 801
DpnII	GATC	6 cut(s)	4, 324, 384, 547, 672, 799
DrdI	GACNNNNNNGTC	1 cut(s)	430
DseDI	GACNNNNNNGTC	1 cut(s)	430
EaeI	YGGCCR	1 cut(s)	746
Eam1104I	CTCTTC	1 cut(s)	444
EarI	CTCTTC	1 cut(s)	444
Ecl136II	GAGCTC	1 cut(s)	173
Eco130I	CCWWGG	1 cut(s)	578
Eco24I	GRGCYC	2 cut(s)	175, 664
Eco32I	GATATC	2 cut(s)	366, 511
Eco47I	GGWCC	2 cut(s)	647, 694
Eco53kI	GAGCTC	1 cut(s)	173
Eco81I	CCTNAGG	1 cut(s)	651
EcoICRI	GAGCTC	1 cut(s)	173
EcoNI	CCTNNNNNAGG	1 cut(s)	654
EcoRII	CCWGG	1 cut(s)	664
EcoRV	GATATC	2 cut(s)	366, 511
EcoT14I	CCWWGG	1 cut(s)	578
EcoT38I	GRGCYC	2 cut(s)	175, 664
ErhI	CCWWGG	1 cut(s)	578
FaeI	CATG	6 cut(s)	20, 43, 402, 647, 679, 733
FaqI	GGGAC	1 cut(s)	85
FatI	CATG	6 cut(s)	16, 39, 398, 643, 675, 729
FauNDI	CATATG	1 cut(s)	67
FbaI	TGATCA	2 cut(s)	672, 799
FblI	GTMKAC	1 cut(s)	528
FokI	GGATG	3 cut(s)	365, 556, 682
FriOI	GRGCYC	2 cut(s)	175, 664
FspBI	CTAG	2 cut(s)	153, 317
GlaI	GCGC	1 cut(s)	132
GsaI	CCCAGC	1 cut(s)	643
HaeIII	GGCC	1 cut(s)	748
HapII	CCGG	2 cut(s)	168, 758
HhaI	GCGC	1 cut(s)	133
Hin1II	CATG	6 cut(s)	20, 43, 402, 647, 679, 733
Hin6I	GCGC	1 cut(s)	131
HinP1I	GCGC	1 cut(s)	131
HincII	GTYRAC	1 cut(s)	423
HindII	GTYRAC	1 cut(s)	423
HinfI	GANTC	3 cut(s)	106, 112, 439
HpaII	CCGG	2 cut(s)	168, 758
HphI	GGTGA	3 cut(s)	203, 713, 783
Hpy166II	GTNNAC	2 cut(s)	423, 529
Hpy188I	TCNGA	3 cut(s)	111, 552, 799
Hpy188III	TCNNGA	3 cut(s)	272, 298, 328
Hpy8I	GTNNAC	2 cut(s)	423, 529
HpyAV	CCTTC	2 cut(s)	277, 320
HpyCH4III	ACNGT	4 cut(s)	124, 589, 717, 789
HpyCH4V	TGCA	6 cut(s)	119, 247, 392, 494, 569, 611
HpyF10VI	GCNNNNNNNGC	8 cut(s)	184, 608, 640, 745, 769, 772, 775, 781
HpyF3I	CTNAG	3 cut(s)	174, 372, 651
Hsp92II	CATG	6 cut(s)	20, 43, 402, 647, 679, 733
HspAI	GCGC	1 cut(s)	131
Ksp22I	TGATCA	2 cut(s)	672, 799
Kzo9I	GATC	6 cut(s)	4, 324, 384, 547, 672, 799
LmnI	GCTCC	5 cut(s)	82, 170, 667, 739, 760
LweI	GCATC	3 cut(s)	196, 578, 598
MaeI	CTAG	2 cut(s)	153, 317
MaeIII	GTNAC	2 cut(s)	286, 789
MalI	GATC	6 cut(s)	6, 326, 386, 549, 674, 801
MboI	GATC	6 cut(s)	4, 324, 384, 547, 672, 799
MboII	GAAGA	2 cut(s)	343, 461
MflI	RGATCY	1 cut(s)	547
MhlI	GDGCHC	2 cut(s)	175, 664
MlsI	TGGCCA	1 cut(s)	748
MluCI	AATT	1 cut(s)	96
MluNI	TGGCCA	1 cut(s)	748
MlyI	GAGTC	1 cut(s)	115
MmeI	TCCRAC	1 cut(s)	118
MnlI	CCTC	9 cut(s)	47, 134, 324, 343, 367, 456, 538, 627, 660
Mox20I	TGGCCA	1 cut(s)	748
MroXI	GAANNNNTTC	1 cut(s)	589
MscI	TGGCCA	1 cut(s)	748
Msp20I	TGGCCA	1 cut(s)	748
MspA1I	CMGCKG	2 cut(s)	371, 491
MspI	CCGG	2 cut(s)	168, 758
MspR9I	CCNGG	1 cut(s)	666
Mva1269I	GAATGC	1 cut(s)	144
MvaI	CCWGG	1 cut(s)	666
MwoI	GCNNNNNNNGC	8 cut(s)	184, 608, 640, 745, 769, 772, 775, 781
NdeI	CATATG	1 cut(s)	67
NdeII	GATC	6 cut(s)	4, 324, 384, 547, 672, 799
NlaIII	CATG	6 cut(s)	20, 43, 402, 647, 679, 733
NlaIV	GGNNCC	5 cut(s)	378, 663, 696, 735, 756
NmeAIII	GCCGAG	1 cut(s)	564
NmuCI	GTSAC	1 cut(s)	789
NspI	RCATGY	1 cut(s)	402
PctI	GAATGC	1 cut(s)	144
PdmI	GAANNNNTTC	1 cut(s)	589
PfeI	GAWTC	2 cut(s)	112, 439
PflMI	CCANNNNNTGG	1 cut(s)	34
PleI	GAGTC	1 cut(s)	114
PpsI	GAGTC	1 cut(s)	114
Psp124BI	GAGCTC	1 cut(s)	175
Psp6I	CCWGG	1 cut(s)	664
PspFI	CCCAGC	1 cut(s)	639
PspGI	CCWGG	1 cut(s)	664
PspN4I	GGNNCC	5 cut(s)	378, 663, 696, 735, 756
PspPI	GGNCC	2 cut(s)	647, 694
PsuI	RGATCY	1 cut(s)	547
PvuII	CAGCTG	2 cut(s)	371, 491
RsaI	GTAC	1 cut(s)	623
RsaNI	GTAC	1 cut(s)	622
SacI	GAGCTC	1 cut(s)	175
Sau3AI	GATC	6 cut(s)	4, 324, 384, 547, 672, 799
Sau96I	GGNCC	2 cut(s)	647, 694
SchI	GAGTC	1 cut(s)	115
ScrFI	CCNGG	1 cut(s)	666
SduI	GDGCHC	2 cut(s)	175, 664
SfaNI	GCATC	3 cut(s)	196, 578, 598
SinI	GGWCC	2 cut(s)	647, 694
Sse9I	AATT	1 cut(s)	96
SsiI	CCGC	2 cut(s)	430, 737
SspMI	CTAG	2 cut(s)	153, 317
SstI	GAGCTC	1 cut(s)	175
StyD4I	CCNGG	1 cut(s)	664
StyI	CCWWGG	1 cut(s)	578
TaaI	ACNGT	4 cut(s)	124, 589, 717, 789
TaqI	TCGA	1 cut(s)	32
TasI	AATT	1 cut(s)	96
TfiI	GAWTC	2 cut(s)	112, 439
TseFI	GTSAC	1 cut(s)	789
Tsp45I	GTSAC	1 cut(s)	789
TspDTI	ATGAA	3 cut(s)	353, 400, 573
TspGWI	ACGGA	2 cut(s)	69, 609
Van91I	CCANNNNNTGG	1 cut(s)	34
VpaK11BI	GGWCC	2 cut(s)	647, 694
XagI	CCTNNNNNAGG	1 cut(s)	654
XceI	RCATGY	1 cut(s)	402
XmiI	GTMKAC	1 cut(s)	528
XmnI	GAANNNNTTC	1 cut(s)	589
XspI	CTAG	2 cut(s)	153, 317

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