Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0001827

Physical Location & Seq

Genomic Coordinates Forward (+)

68634646 .. 68637421

Gene Structure 2776 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG379400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 990 bp

ATGGTGTGTGGCAAACGATATGGTGCTTCTTCGGATATGAATGCTGTTTTTCAACACGAAAGGCCTCCTTGCTCTTCTGACGTTCTCGAGTCTCTTTGGATTCCCACTTCATCTTCATCTTTTCATGGTTCAAATTCAATGGTCAATTTTGAAAATGTTAGCGGTGGAGACTCCATGGACAAGTCACTCTTCCAACCTATTGATAAAGAAGAAAATGGGGATGACGATTTCGAAGGTAGCCTGCTGCATCAACCCGGAAAGAAAAGACGACTTACAGTTGATCAAGTTCAGTTTCTAGAGAAGAATTTTGAGCTAGAAAACAAGCTTGAACCAGATAGGAAAGTCGAACTTGCCAAAGAACTTAGCTTGGAGCCTCGCCAAGTTGCAATTTGGTTTCAAAACCGGCGGGCTCGGTTTAAGACCAAGCAGCTCGAAAAGGACTATGACTCATTGAGAGCTAGCTATGACAAGCTCAAGGCTGATCATGATAAGCTGCTAAAGCAGAATGGAAATTTGAAGAATGAGATTGATTCCCTCAAGGACGAGTTGCTTTTGAGAGAGAAAGGAAAGGAAAATTTGGAGTCAAATGATGATGGAATCAATTCGCCAAAAATGGATATCCAAAATGCCATTCCAAATAATACTGCTGATGTTTATGTGCCGATTATGGTATGCAAGCAAGAAGATGCAAGTTCTGCCAAAAGTGATGTGTTTGACTCAGATAGTCCACATTGCACTGAAAACCATTCATTGTTGTTAGAGCCCACTACAACTGCTGATTCCTCTCATGGATTTGAACCTGCTGATCACTCAGATTTCTCACAAGATAATGAAGATGACAACAGCCTTACCAGAAGCCTTTTGCATTTGCCCCCACCTTGCTTTTTAAAACTCGAAGATATCTGCTATGATGATCCCCCTGCAATTTCTAGTAATTTTGGATTAATCCCAGTAGAAGATCAGCATCCTTTTGGTTTTTGGCCCTACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0006417 GO:0006950 GO:0006970 GO:0007275 GO:0008150 GO:0009314 GO:0009416 GO:0009628 GO:0009637 GO:0009651 GO:0009653 GO:0009889 GO:0009890 GO:0009891 GO:0009892 GO:0009893 GO:0009965 GO:0010016 GO:0010468 GO:0010556 GO:0010557 GO:0010558 GO:0010604 GO:0010605 GO:0010608 GO:0010628 GO:0010629 GO:0017148 GO:0019219 GO:0019222 GO:0031323 GO:0031324 GO:0031325 GO:0031326 GO:0031327 GO:0031328 GO:0032268 GO:0032269 GO:0032501 GO:0032502 GO:0034248 GO:0034249 GO:0042802 GO:0042803 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044464 GO:0045893 GO:0045935 GO:0046983 GO:0048366 GO:0048367 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0048731 GO:0048827 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051173 GO:0051246 GO:0051248 GO:0051252 GO:0051254 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0099402 GO:0140110 GO:1901363 GO:1902680 GO:1903506 GO:1903508 GO:1905392 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HALZ Homeobox

Protein Analysis

329

Amino Acids

37.24

Weight (kDa)

4.71

Isoelectric Point (pI)

41.36

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Homeodomain	PF00046	87 - 140	6.5e-16	Homeodomain
HALZ	PF02183	142 - 183	1.1e-14	Homeobox associated leucine zipper

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: OG0001827)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G27045 AT1G27045 AT1G27045 AT1G27045 AT1G27045
fragaria_vesca	FvH4_4g32060 FvH4_5g15520 FvH4_5g15520 FvH4_5g15520
malus_domestica	MD06G1032300.v1.1 MD06G1187600.v1.1 MD13G1030700.v1.1 MD13G1079500.v1.1 MD14G1194000.v1.1 MD16G1079400.v1.1
prunus_persica	Prupe.1G267300_v2.0.a1 Prupe.1G267300_v2.0.a1 Prupe.1G267300_v2.0.a1 Prupe.5G185900_v2.0.a1
pyrus_communis	pycom06g16680 pycom13g06920 pycom14g16140 pycom16g06860
rosa_chinensis	RchiOBHm_Chr4g0440751 RchiOBHm_Chr7g0180571
rosa_laevigata	RLG00000005254 RLG00000006157
rosa_multiflora	Rmu_sc0000424.1_g000003 Rmu_sc0005690.1_g000017 Rmu_sc0008018.1_g000014
rosa_roxburghii	Rroxscaffold_3G00272780 Rroxscaffold_5G00381510
rosa_rugosa	Rorug04G0327600 Rorug06G0433800
rosa_samantha	Rh4AG379400 Rh4BG392200 Rh4BG392300 Rh4CG406900 Rh4CG407000 Rh4DG386100 Rh7AG035200 Rh7BG035100 Rh7CG036700 Rh7DG035400
rosa_wichuraiana	Rw4G032630 Rw4G032660 Rw7G002890

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	808
AciI	CCGC	2 cut(s)	162, 406
AclWI	GGATC	1 cut(s)	908
AcsI	RAATTY	4 cut(s)	133, 304, 511, 574
AgsI	TTSAA	8 cut(s)	53, 132, 138, 152, 329, 398, 517, 797
AjuI	GAANNNNNNNTTGG	2 cut(s)	615, 647
AluBI	AGCT	8 cut(s)	313, 325, 366, 430, 458, 462, 472, 493
AluI	AGCT	8 cut(s)	313, 325, 366, 430, 458, 462, 472, 493
Alw26I	GTCTC	2 cut(s)	96, 162
AlwI	GGATC	1 cut(s)	908
Ama87I	CYCGRG	1 cut(s)	86
AoxI	GGCC	2 cut(s)	62, 980
ApeKI	GCWGC	3 cut(s)	244, 427, 493
ApoI	RAATTY	4 cut(s)	133, 304, 511, 574
AseI	ATTAAT	1 cut(s)	944
Asp700I	GAANNNNTTC	1 cut(s)	601
AspS9I	GGNCC	1 cut(s)	981
AsuC2I	CCSGG	1 cut(s)	255
AsuII	TTCGAA	1 cut(s)	231
AsuNHI	GCTAGC	1 cut(s)	458
AvaI	CYCGRG	1 cut(s)	86
BanII	GRGCYC	2 cut(s)	412, 765
BbvI	GCAGC	3 cut(s)	231, 439, 480
BccI	CCATC	1 cut(s)	587
BclI	TGATCA	3 cut(s)	280, 481, 805
BcnI	CCSGG	1 cut(s)	255
BcoDI	GTCTC	2 cut(s)	96, 162
BfaI	CTAG	4 cut(s)	296, 314, 459, 930
BfuAI	ACCTGC	1 cut(s)	808
BisI	GCNGC	3 cut(s)	245, 428, 494
BlsI	GCNGC	3 cut(s)	246, 429, 495
Bme1390I	CCNGG	1 cut(s)	255
BmeT110I	CYCGRG	1 cut(s)	86
BmgT120I	GGNCC	1 cut(s)	981
BmiI	GGNNCC	1 cut(s)	372
BmrFI	CCNGG	1 cut(s)	255
BmrI	ACTGGG	1 cut(s)	944
BmsI	GCATC	3 cut(s)	256, 676, 973
BmtI	GCTAGC	1 cut(s)	462
BmuI	ACTGGG	1 cut(s)	944
Bpu14I	TTCGAA	1 cut(s)	231
BpuEI	CTTGAG	2 cut(s)	458, 521
BpuMI	CCSGG	1 cut(s)	255
BsaBI	GATNNNNATC	1 cut(s)	963
BsaJI	CCNNGG	1 cut(s)	174
Bse118I	RCCGGY	1 cut(s)	402
Bse1I	ACTGG	1 cut(s)	950
Bse3DI	GCAATG	1 cut(s)	730
Bse8I	GATNNNNATC	1 cut(s)	963
BseDI	CCNNGG	1 cut(s)	174
BseGI	GGATG	2 cut(s)	226, 964
BseJI	GATNNNNATC	1 cut(s)	963
BseMI	GCAATG	1 cut(s)	730
BseMII	CTCAG	2 cut(s)	732, 825
BseNI	ACTGG	1 cut(s)	950
BseXI	GCAGC	3 cut(s)	231, 439, 480
BshFI	GGCC	2 cut(s)	64, 982
BsiHKCI	CYCGRG	1 cut(s)	86
BsiSI	CCGG	2 cut(s)	255, 403
BsmAI	GTCTC	2 cut(s)	96, 162
BsmI	GAATGC	1 cut(s)	46
BsnI	GGCC	2 cut(s)	64, 982
BsoBI	CYCGRG	1 cut(s)	86
Bsp119I	TTCGAA	1 cut(s)	231
Bsp1286I	GDGCHC	2 cut(s)	412, 765
Bsp143I	GATC	5 cut(s)	280, 481, 805, 913, 958
Bsp19I	CCATGG	1 cut(s)	174
BspACI	CCGC	2 cut(s)	162, 406
BspANI	GGCC	2 cut(s)	64, 982
BspCNI	CTCAG	2 cut(s)	731, 824
BspHI	TCATGA	1 cut(s)	484
BspLI	GGNNCC	1 cut(s)	372
BspMI	ACCTGC	1 cut(s)	808
BspOI	GCTAGC	1 cut(s)	462
BspPI	GGATC	1 cut(s)	908
BspQI	GCTCTTC	1 cut(s)	79
BspT104I	TTCGAA	1 cut(s)	231
BsrDI	GCAATG	1 cut(s)	730
BsrFI	RCCGGY	1 cut(s)	402
BsrI	ACTGG	1 cut(s)	950
BssAI	RCCGGY	1 cut(s)	402
BssECI	CCNNGG	1 cut(s)	174
BssMI	GATC	5 cut(s)	280, 481, 805, 913, 958
BssT1I	CCWWGG	1 cut(s)	174
Bst4CI	ACNGT	1 cut(s)	277
Bst6I	CTCTTC	2 cut(s)	79, 194
BstAPI	GCANNNNNTGC	1 cut(s)	695
BstBI	TTCGAA	1 cut(s)	231
BstC8I	GCNNGC	4 cut(s)	242, 408, 460, 677
BstDEI	CTNAG	3 cut(s)	362, 718, 811
BstDSI	CCRYGG	1 cut(s)	174
BstF5I	GGATG	2 cut(s)	226, 964
BstKTI	GATC	5 cut(s)	283, 484, 808, 916, 961
BstMAI	GTCTC	2 cut(s)	96, 162
BstMBI	GATC	5 cut(s)	280, 481, 805, 913, 958
BstMWI	GCNNNNNNNGC	2 cut(s)	499, 695
BstSCI	CCNGG	1 cut(s)	253
BstV1I	GCAGC	3 cut(s)	231, 439, 480
BsuRI	GGCC	2 cut(s)	64, 982
BtgI	CCRYGG	1 cut(s)	174
BtsCI	GGATG	2 cut(s)	226, 964
BtsIMutI	CAGTG	1 cut(s)	735
BveI	ACCTGC	1 cut(s)	808
Cac8I	GCNNGC	4 cut(s)	242, 408, 460, 677
CciI	TCATGA	1 cut(s)	484
Cfr10I	RCCGGY	1 cut(s)	402
Cfr13I	GGNCC	1 cut(s)	981
CviAII	CATG	4 cut(s)	125, 175, 485, 788
DdeI	CTNAG	3 cut(s)	362, 718, 811
DpnI	GATC	5 cut(s)	282, 483, 807, 915, 960
DpnII	GATC	5 cut(s)	280, 481, 805, 913, 958
DraI	TTTAAA	1 cut(s)	888
Eam1104I	CTCTTC	2 cut(s)	79, 194
EarI	CTCTTC	2 cut(s)	79, 194
Eco130I	CCWWGG	1 cut(s)	174
Eco147I	AGGCCT	1 cut(s)	64
Eco24I	GRGCYC	2 cut(s)	412, 765
Eco32I	GATATC	2 cut(s)	619, 901
Eco88I	CYCGRG	1 cut(s)	86
EcoRV	GATATC	2 cut(s)	619, 901
EcoT14I	CCWWGG	1 cut(s)	174
EcoT38I	GRGCYC	2 cut(s)	412, 765
ErhI	CCWWGG	1 cut(s)	174
FaeI	CATG	4 cut(s)	128, 178, 488, 791
FalI	AAGNNNNNCTT	6 cut(s)	52, 84, 173, 205, 333, 365
FatI	CATG	4 cut(s)	124, 174, 484, 787
FauI	CCCGC	1 cut(s)	399
FbaI	TGATCA	3 cut(s)	280, 481, 805
Fnu4HI	GCNGC	3 cut(s)	245, 428, 494
FokI	GGATG	2 cut(s)	233, 951
FriOI	GRGCYC	2 cut(s)	412, 765
Fsp4HI	GCNGC	3 cut(s)	245, 428, 494
FspBI	CTAG	4 cut(s)	296, 314, 459, 930
GluI	GCNGC	3 cut(s)	245, 428, 494
HaeIII	GGCC	2 cut(s)	64, 982
HapII	CCGG	2 cut(s)	255, 403
Hin1II	CATG	4 cut(s)	128, 178, 488, 791
HindIII	AAGCTT	1 cut(s)	323
HinfI	GANTC	9 cut(s)	89, 100, 170, 446, 530, 581, 597, 716, 779
HpaII	CCGG	2 cut(s)	255, 403
Hpy166II	GTNNAC	1 cut(s)	728
Hpy188I	TCNGA	4 cut(s)	34, 79, 721, 814
Hpy188III	TCNNGA	3 cut(s)	86, 296, 485
Hpy8I	GTNNAC	1 cut(s)	728
HpyAV	CCTTC	1 cut(s)	227
HpyCH4III	ACNGT	1 cut(s)	277
HpyCH4IV	ACGT	1 cut(s)	81
HpyCH4V	TGCA	7 cut(s)	247, 386, 675, 689, 735, 865, 923
HpyF10VI	GCNNNNNNNGC	2 cut(s)	499, 695
HpyF3I	CTNAG	3 cut(s)	362, 718, 811
HpySE526I	ACGT	1 cut(s)	81
Hsp92II	CATG	4 cut(s)	128, 178, 488, 791
Ksp22I	TGATCA	3 cut(s)	280, 481, 805
Kzo9I	GATC	5 cut(s)	280, 481, 805, 913, 958
LguI	GCTCTTC	1 cut(s)	79
LmnI	GCTCC	1 cut(s)	370
LpnPI	CCDG	8 cut(s)	254, 268, 345, 416, 813, 865, 933, 963
Lsp1109I	GCAGC	3 cut(s)	231, 439, 480
LweI	GCATC	3 cut(s)	256, 676, 973
MaeI	CTAG	4 cut(s)	296, 314, 459, 930
MaeII	ACGT	1 cut(s)	81
MaeIII	GTNAC	1 cut(s)	183
MalI	GATC	5 cut(s)	282, 483, 807, 915, 960
MboI	GATC	5 cut(s)	280, 481, 805, 913, 958
MhlI	GDGCHC	2 cut(s)	412, 765
MluCI	AATT	9 cut(s)	133, 145, 304, 387, 511, 574, 601, 924, 934
MlyI	GAGTC	5 cut(s)	98, 164, 440, 590, 710
MmeI	TCCRAC	1 cut(s)	217
MnlI	CCTC	4 cut(s)	75, 384, 545, 793
MroXI	GAANNNNTTC	1 cut(s)	601
MseI	TTAA	3 cut(s)	417, 887, 944
MspI	CCGG	2 cut(s)	255, 403
MspR9I	CCNGG	1 cut(s)	255
Mva1269I	GAATGC	1 cut(s)	46
MwoI	GCNNNNNNNGC	2 cut(s)	499, 695
NciI	CCSGG	1 cut(s)	255
NcoI	CCATGG	1 cut(s)	174
NdeII	GATC	5 cut(s)	280, 481, 805, 913, 958
NheI	GCTAGC	1 cut(s)	458
NlaIII	CATG	4 cut(s)	128, 178, 488, 791
NlaIV	GGNNCC	1 cut(s)	372
NmuCI	GTSAC	1 cut(s)	183
NspV	TTCGAA	1 cut(s)	231
PaeR7I	CTCGAG	1 cut(s)	86
PagI	TCATGA	1 cut(s)	484
PceI	AGGCCT	1 cut(s)	64
PciSI	GCTCTTC	1 cut(s)	79
PctI	GAATGC	1 cut(s)	46
PdmI	GAANNNNTTC	1 cut(s)	601
PfeI	GAWTC	4 cut(s)	100, 530, 597, 779
PkrI	GCNGC	3 cut(s)	246, 429, 495
PleI	GAGTC	5 cut(s)	97, 164, 440, 589, 710
PpsI	GAGTC	5 cut(s)	97, 164, 440, 589, 710
PshBI	ATTAAT	1 cut(s)	944
PspN4I	GGNNCC	1 cut(s)	372
PspPI	GGNCC	1 cut(s)	981
SapI	GCTCTTC	1 cut(s)	79
SaqAI	TTAA	3 cut(s)	417, 887, 944
SatI	GCNGC	3 cut(s)	245, 428, 494
Sau3AI	GATC	5 cut(s)	280, 481, 805, 913, 958
Sau96I	GGNCC	1 cut(s)	981
SchI	GAGTC	5 cut(s)	98, 164, 440, 590, 710
ScrFI	CCNGG	1 cut(s)	255
SduI	GDGCHC	2 cut(s)	412, 765
SfaNI	GCATC	3 cut(s)	256, 676, 973
Sfr274I	CTCGAG	1 cut(s)	86
SfuI	TTCGAA	1 cut(s)	231
SlaI	CTCGAG	1 cut(s)	86
SmlI	CTYRAG	3 cut(s)	86, 473, 536
SmoI	CTYRAG	3 cut(s)	86, 473, 536
Sse9I	AATT	9 cut(s)	133, 145, 304, 387, 511, 574, 601, 924, 934
SseBI	AGGCCT	1 cut(s)	64
SsiI	CCGC	2 cut(s)	162, 406
SspMI	CTAG	4 cut(s)	296, 314, 459, 930
StuI	AGGCCT	1 cut(s)	64
StyD4I	CCNGG	1 cut(s)	253
StyI	CCWWGG	1 cut(s)	174
TaaI	ACNGT	1 cut(s)	277
TaiI	ACGT	1 cut(s)	84
TaqI	TCGA	5 cut(s)	87, 231, 345, 432, 894
TasI	AATT	9 cut(s)	133, 145, 304, 387, 511, 574, 601, 924, 934
TfiI	GAWTC	4 cut(s)	100, 530, 597, 779
Tru1I	TTAA	3 cut(s)	417, 887, 944
Tru9I	TTAA	3 cut(s)	417, 887, 944
TscAI	CASTG	1 cut(s)	742
TseFI	GTSAC	1 cut(s)	183
TseI	GCWGC	3 cut(s)	244, 427, 493
Tsp45I	GTSAC	1 cut(s)	183
TspDTI	ATGAA	6 cut(s)	53, 99, 105, 113, 738, 846
TspRI	CASTG	1 cut(s)	742
VspI	ATTAAT	1 cut(s)	944
XapI	RAATTY	4 cut(s)	133, 304, 511, 574
XbaI	TCTAGA	1 cut(s)	295
XhoI	CTCGAG	1 cut(s)	86
XmnI	GAANNNNTTC	1 cut(s)	601
XspI	CTAG	4 cut(s)	296, 314, 459, 930

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