Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0000820

Physical Location & Seq

Genomic Coordinates Reverse (-)

16894338 .. 16896709

Gene Structure 2372 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG161600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 324 bp

ATGTTATTATATGCACATTGCAGGTGGGAGCGAGCCCTGCTGTTTGTCCTCAGTGCTTTGGACAGGCTGAGTGTGAAATTCCATCACCCGATTGATAGGCCAGCAGTGGCGTTGTCAACAACAAAGCCATCTCAACAAGAAAATGTGAAGCTAACGCTTGCTGGACTACCTAGGAGAGAGGGTGCCGTTATCTGTGTGTATTACCTTGAAACTGGCACATGCAAGTATGGTGCAACCTGCAGATTTGACCACCCACCTCCTGGCGAAGTTGTAGCAATGGCAGCTTCACAAGCAAAATCTGATTCTACTGGAGGAAAAGCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001709 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0003730 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0006417 GO:0008150 GO:0009889 GO:0009890 GO:0009892 GO:0009893 GO:0009894 GO:0009896 GO:0009987 GO:0010468 GO:0010556 GO:0010558 GO:0010604 GO:0010605 GO:0010608 GO:0010629 GO:0017148 GO:0019219 GO:0019222 GO:0030154 GO:0031323 GO:0031324 GO:0031325 GO:0031326 GO:0031327 GO:0031329 GO:0031331 GO:0032268 GO:0032269 GO:0032502 GO:0034248 GO:0034249 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043487 GO:0043488 GO:0044424 GO:0044444 GO:0044464 GO:0045165 GO:0045935 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0048869 GO:0050779 GO:0050789 GO:0050794 GO:0051171 GO:0051172 GO:0051173 GO:0051246 GO:0051248 GO:0051252 GO:0051254 GO:0060255 GO:0061013 GO:0061014 GO:0061157 GO:0061158 GO:0065007 GO:0065008 GO:0080090 GO:0097159 GO:1901363 GO:1903311 GO:1903313 GO:2000112 GO:2000113

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-CCCH

Protein Analysis

107

Amino Acids

11.69

Weight (kDa)

9.02

Isoelectric Point (pI)

34.09

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-CCCH	PF00642	63 - 86	6.2e-10	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf_CCCH_4	PF18345	65 - 84	1.1e-07	Zinc finger domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

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Publication-ready

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Orthologous Genes (Group: OG0000820)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G12680
fragaria_vesca	FvH4_3g13640 FvH4_3g13640 FvH4_3g13640 FvH4_3g13640 FvH4_3g13640
malus_domestica	MD03G1280400.v1.1 MD06G1158700.v1.1 MD06G1158900.v1.1 MD06G1159100.v1.1 MD10G1219700.v1.1
prunus_persica	Prupe.4G124000_v2.0.a1 Prupe.4G124000_v2.0.a1 Prupe.4G124000_v2.0.a1 Prupe.4G124000_v2.0.a1 Prupe.4G124000_v2.0.a1 Prupe.4G124000_v2.0.a1 Prupe.7G013500_v2.0.a1 Prupe.8G067100_v2.0.a1
pyrus_communis	pycom06g14160 pycom06g14170 pycom10g18590
rosa_chinensis	RchiOBHm_Chr5g0022551 RchiOBHm_Chr5g0022581 RchiOBHm_Chr5g0022611 RchiOBHm_Chr5g0022711 RchiOBHm_Chr5g0022731 RchiOBHm_Chr5g0022751 RchiOBHm_Chr5g0022761 RchiOBHm_Chr5g0022841 RchiOBHm_Chr5g0022861 RchiOBHm_Chr5g0022911
rosa_laevigata	RLG00000032672 RLG00000032674 RLG00000032675 RLG00000032677 RLG00000032679 RLG00000035293
rosa_multiflora	Rmu_sc0000401.1_g000006 Rmu_sc0000401.1_g000007 Rmu_sc0000401.1_g000014 Rmu_sc0000401.1_g000026 Rmu_sc0000401.1_g000028 Rmu_sc0010181.1_g000001 Rmu_sc0010181.1_g000004 Rmu_sc0010181.1_g000009 Rmu_sc0042157.1_g000001
rosa_roxburghii	Rroxscaffold_1G00056450 Rroxscaffold_1G00056490
rosa_rugosa	Rorug05G0075100
rosa_samantha	Rh5AG161600 Rh5BG099400 Rh5BG160400 Rh5BG160700 Rh5CG175100 Rh5DG161100 Rh5DG161300 Rh5DG161500 Rh5DG161600 Rh5DG161700 Rh5DG161900 Rh5DG162000 Rh5DG162400
rosa_wichuraiana	Rw5G014410 Rw5G014450 Rw5G014490 Rw5G014510 Rw5G014540

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	12
Acc36I	ACCTGC	2 cut(s)	12, 245
AccB1I	GGYRCC	1 cut(s)	182
AccB7I	CCANNNNNTGG	1 cut(s)	260
AcsI	RAATTY	1 cut(s)	77
AfiI	CCNNNNNNNGG	1 cut(s)	260
AgsI	TTSAA	1 cut(s)	209
AjnI	CCWGG	1 cut(s)	259
AluBI	AGCT	2 cut(s)	151, 284
AluI	AGCT	2 cut(s)	151, 284
AoxI	GGCC	1 cut(s)	98
ApeKI	GCWGC	1 cut(s)	281
ApoI	RAATTY	1 cut(s)	77
AspA2I	CCTAGG	1 cut(s)	170
AsuHPI	GGTGA	1 cut(s)	77
AvrII	CCTAGG	1 cut(s)	170
BanI	GGYRCC	1 cut(s)	182
BanII	GRGCYC	1 cut(s)	37
BbvI	GCAGC	1 cut(s)	293
BccI	CCATC	2 cut(s)	90, 136
BceAI	ACGGC	1 cut(s)	170
BciT130I	CCWGG	1 cut(s)	261
BfaI	CTAG	1 cut(s)	171
BfmI	CTRYAG	1 cut(s)	238
BfuAI	ACCTGC	2 cut(s)	12, 245
BisI	GCNGC	1 cut(s)	282
BlnI	CCTAGG	1 cut(s)	170
BlsI	GCNGC	1 cut(s)	283
Bme1390I	CCNGG	1 cut(s)	261
BmiI	GGNNCC	1 cut(s)	184
BmrFI	CCNGG	1 cut(s)	261
BsaJI	CCNNGG	1 cut(s)	170
BsaXI	ACNNNNNCTCC	2 cut(s)	166, 196
Bsc4I	CCNNNNNNNGG	1 cut(s)	260
Bse1I	ACTGG	2 cut(s)	217, 313
Bse3DI	GCAATG	2 cut(s)	16, 282
BseBI	CCWGG	1 cut(s)	261
BseDI	CCNNGG	1 cut(s)	170
BseLI	CCNNNNNNNGG	1 cut(s)	260
BseMI	GCAATG	2 cut(s)	16, 282
BseMII	CTCAG	2 cut(s)	59, 64
BseNI	ACTGG	2 cut(s)	217, 313
BseXI	GCAGC	1 cut(s)	293
BshFI	GGCC	1 cut(s)	100
BshNI	GGYRCC	1 cut(s)	182
BslI	CCNNNNNNNGG	1 cut(s)	260
BsnI	GGCC	1 cut(s)	100
Bsp1286I	GDGCHC	1 cut(s)	37
BspANI	GGCC	1 cut(s)	100
BspCNI	CTCAG	2 cut(s)	60, 63
BspLI	GGNNCC	1 cut(s)	184
BspMAI	CTGCAG	1 cut(s)	242
BspMI	ACCTGC	2 cut(s)	12, 245
BspT107I	GGYRCC	1 cut(s)	182
BsrDI	GCAATG	2 cut(s)	16, 282
BsrI	ACTGG	2 cut(s)	217, 313
BssECI	CCNNGG	1 cut(s)	170
BssT1I	CCWWGG	1 cut(s)	170
Bst2UI	CCWGG	1 cut(s)	261
BstC8I	GCNNGC	3 cut(s)	33, 102, 159
BstDEI	CTNAG	2 cut(s)	50, 68
BstMWI	GCNNNNNNNGC	3 cut(s)	37, 281, 290
BstNI	CCWGG	1 cut(s)	261
BstNSI	RCATGY	1 cut(s)	222
BstSCI	CCNGG	1 cut(s)	259
BstSFI	CTRYAG	1 cut(s)	238
BstV1I	GCAGC	1 cut(s)	293
BsuRI	GGCC	1 cut(s)	100
BtsI	GCAGTG	1 cut(s)	111
BtsIMutI	CAGTG	2 cut(s)	58, 111
BveI	ACCTGC	2 cut(s)	12, 245
Cac8I	GCNNGC	3 cut(s)	33, 102, 159
CviAII	CATG	1 cut(s)	219
CviJI	RGCY	6 cut(s)	35, 67, 100, 127, 151, 284
CviKI_1	RGCY	6 cut(s)	35, 67, 100, 127, 151, 284
DdeI	CTNAG	2 cut(s)	50, 68
Eco130I	CCWWGG	1 cut(s)	170
Eco24I	GRGCYC	1 cut(s)	37
EcoRII	CCWGG	1 cut(s)	259
EcoT14I	CCWWGG	1 cut(s)	170
EcoT38I	GRGCYC	1 cut(s)	37
ErhI	CCWWGG	1 cut(s)	170
FaeI	CATG	1 cut(s)	222
FaiI	YATR	5 cut(s)	10, 12, 220, 228, 322
FatI	CATG	1 cut(s)	218
Fnu4HI	GCNGC	1 cut(s)	282
FriOI	GRGCYC	1 cut(s)	37
Fsp4HI	GCNGC	1 cut(s)	282
FspBI	CTAG	1 cut(s)	171
GluI	GCNGC	1 cut(s)	282
HaeIII	GGCC	1 cut(s)	100
Hin1II	CATG	1 cut(s)	222
HincII	GTYRAC	1 cut(s)	117
HindII	GTYRAC	1 cut(s)	117
HinfI	GANTC	1 cut(s)	302
HphI	GGTGA	1 cut(s)	77
Hpy166II	GTNNAC	1 cut(s)	117
Hpy188I	TCNGA	1 cut(s)	301
Hpy8I	GTNNAC	1 cut(s)	117
HpyCH4V	TGCA	5 cut(s)	14, 21, 222, 233, 240
HpyF10VI	GCNNNNNNNGC	3 cut(s)	37, 281, 290
HpyF3I	CTNAG	2 cut(s)	50, 68
Hsp92II	CATG	1 cut(s)	222
LmnI	GCTCC	1 cut(s)	28
Lsp1109I	GCAGC	1 cut(s)	293
MaeI	CTAG	1 cut(s)	171
MhlI	GDGCHC	1 cut(s)	37
MluCI	AATT	1 cut(s)	77
MnlI	CCTC	4 cut(s)	59, 172, 267, 305
MspR9I	CCNGG	1 cut(s)	261
MvaI	CCWGG	1 cut(s)	261
MwoI	GCNNNNNNNGC	3 cut(s)	37, 281, 290
NlaIII	CATG	1 cut(s)	222
NlaIV	GGNNCC	1 cut(s)	184
NspI	RCATGY	1 cut(s)	222
PaqCI	CACCTGC	1 cut(s)	12
PfeI	GAWTC	1 cut(s)	302
PflMI	CCANNNNNTGG	1 cut(s)	260
PkrI	GCNGC	1 cut(s)	283
Psp6I	CCWGG	1 cut(s)	259
PspGI	CCWGG	1 cut(s)	259
PspN4I	GGNNCC	1 cut(s)	184
PstI	CTGCAG	1 cut(s)	242
SatI	GCNGC	1 cut(s)	282
ScrFI	CCNGG	1 cut(s)	261
SduI	GDGCHC	1 cut(s)	37
SetI	ASST	7 cut(s)	26, 153, 172, 207, 239, 259, 286
SfcI	CTRYAG	1 cut(s)	238
Sse9I	AATT	1 cut(s)	77
SspMI	CTAG	1 cut(s)	171
StyD4I	CCNGG	1 cut(s)	259
StyI	CCWWGG	1 cut(s)	170
TasI	AATT	1 cut(s)	77
TfiI	GAWTC	1 cut(s)	302
TscAI	CASTG	2 cut(s)	58, 111
TseI	GCWGC	1 cut(s)	281
TspRI	CASTG	2 cut(s)	58, 111
Van91I	CCANNNNNTGG	1 cut(s)	260
XapI	RAATTY	1 cut(s)	77
XceI	RCATGY	1 cut(s)	222
XcmI	CCANNNNNNNNNTGG	1 cut(s)	257
XmaJI	CCTAGG	1 cut(s)	170
XspI	CTAG	1 cut(s)	171

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