Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0000820

Physical Location & Seq

Genomic Coordinates Reverse (-)

16929250 .. 16939515

Gene Structure 10266 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG161900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 888 bp

ATGTACCTCGCCGGCACCAACGGCCTCGGCCCTTACTCCGACGCCGCCAGAGCGACGTCGTATATGATGTCATCCTGGCCCGCCCCGGATGCCGAACCCGGCCCGCCCGGCTTCAAACGCACCTCTGAAGCACTCTACCATCAGGCTCTTTTGGGTGCCCATAATCCGATTGGGCAAATGGAAGCTTGGTATTCAACAAATCCTTTAGCAAAACGACCTAGATTCGAGAATACAAGCTTGCCTATTTATCCACAGAGGCCAGGAGAGACAGATTGTGCCCACTATATGCAAACAAGAACCTGTAAATTTGGAGAGGGCTGCAAGTTTGACCATCGTATTTGGGTTCCTGATGGTGGAATCCCAGATTGGAAAGAGTTTGGTTATGTGGCTAGTGAGGCTGCAAAAAGTCGTGTTGGGAATTTAGATATCAATCCACCTGTTGCTGCAATCAGCTATCCTCTTTCAGCGCCTTCAGTTGCAGGTTTTAACATGGGAGTTGCTAATCCAGCTGCCTTCACTAATCAAACTTTGGCACAACCAACGTTGGGAGCGAGTCCTACTGTTTATCCTCAGAGGTTTGGACAGGCTGAGTGTGAATACTATATGAAGACTGGGGAATGTAAGTATGGTGCGCAATGCAGATTCCATCACCCGATTGATAGGCCAGCAGTGGCGTTGTCAACAACAAAGCCATCTCAACAAGAAAATGTGAAGCTAACGCTGGCTGGACTACCTAGGAGAGAGGGTGCCGTTATCCGTGTGTATTACCTTAAAACCGGCACATGCAAGTATGGTGCAACCTGCAGATTTGACCACCCACCTCCTGGCGAAGTTGTAGCAATGGCAGCTTCACAAGCAAAATCTGATTCTATTGGAGGAAAAGCATAA

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

295

Amino Acids

31.98

Weight (kDa)

8.69

Isoelectric Point (pI)

38.63

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-CCCH	PF00642	88 - 111	2.2e-06	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf-CCCH	PF00642	193 - 218	5.4e-11	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf-CCCH	PF00642	255 - 274	6.8e-08	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf_CCCH_4	PF18345	255 - 272	4.2e-06	Zinc finger domain

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: 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)
AatII	GACGTC	1 cut(s)	59
Acc16I	TGCGCA	1 cut(s)	633
Acc36I	ACCTGC	2 cut(s)	470, 809
AccB1I	GGYRCC	3 cut(s)	14, 155, 746
AccB7I	CCANNNNNTGG	1 cut(s)	824
AciI	CCGC	3 cut(s)	45, 81, 104
AclI	AACGTT	1 cut(s)	542
AcsI	RAATTY	2 cut(s)	305, 418
AcuI	CTGAAG	2 cut(s)	147, 456
AcyI	GRCGYC	2 cut(s)	42, 56
AfaI	GTAC	1 cut(s)	5
AfiI	CCNNNNNNNGG	3 cut(s)	353, 545, 824
AgsI	TTSAA	2 cut(s)	115, 195
AjnI	CCWGG	3 cut(s)	74, 259, 823
AjuI	GAANNNNNNNTTGG	2 cut(s)	349, 381
AluBI	AGCT	6 cut(s)	185, 237, 453, 509, 715, 848
AluI	AGCT	6 cut(s)	185, 237, 453, 509, 715, 848
Alw26I	GTCTC	1 cut(s)	260
AoxI	GGCC	6 cut(s)	22, 28, 77, 100, 257, 662
ApeKI	GCWGC	5 cut(s)	318, 398, 443, 509, 845
ApoI	RAATTY	2 cut(s)	305, 418
AspA2I	CCTAGG	1 cut(s)	734
AspLEI	GCGC	2 cut(s)	469, 634
AspS9I	GGNCC	3 cut(s)	29, 78, 101
AsuC2I	CCSGG	3 cut(s)	86, 99, 108
AsuHPI	GGTGA	1 cut(s)	641
AvrII	CCTAGG	1 cut(s)	734
BaeGI	GKGCMC	2 cut(s)	160, 280
BanI	GGYRCC	3 cut(s)	14, 155, 746
BbsI	GAAGAC	1 cut(s)	614
BbvI	GCAGC	5 cut(s)	305, 385, 430, 496, 857
BccI	CCATC	5 cut(s)	147, 339, 344, 654, 700
BceAI	ACGGC	2 cut(s)	37, 734
BciT130I	CCWGG	3 cut(s)	76, 261, 825
BcnI	CCSGG	3 cut(s)	86, 99, 108
BcoDI	GTCTC	1 cut(s)	260
BfaI	CTAG	3 cut(s)	219, 390, 735
BfmI	CTRYAG	1 cut(s)	802
BfoI	RGCGCY	1 cut(s)	470
BfuAI	ACCTGC	2 cut(s)	470, 809
BglI	GCCNNNNNGGC	1 cut(s)	108
BisI	GCNGC	6 cut(s)	45, 319, 399, 444, 510, 846
BlnI	CCTAGG	1 cut(s)	734
BlsI	GCNGC	6 cut(s)	46, 320, 400, 445, 511, 847
Bme1390I	CCNGG	6 cut(s)	76, 86, 99, 108, 261, 825
BmgT120I	GGNCC	3 cut(s)	29, 78, 101
BmiI	GGNNCC	4 cut(s)	16, 157, 345, 748
BmrFI	CCNGG	6 cut(s)	76, 86, 99, 108, 261, 825
BmrI	ACTGGG	1 cut(s)	621
BmsI	GCATC	1 cut(s)	79
BmuI	ACTGGG	1 cut(s)	621
BpiI	GAAGAC	1 cut(s)	614
BpuMI	CCSGG	3 cut(s)	86, 99, 108
BsaBI	GATNNNNATC	1 cut(s)	429
BsaHI	GRCGYC	2 cut(s)	42, 56
BsaJI	CCNNGG	3 cut(s)	25, 84, 734
BsaXI	ACNNNNNCTCC	2 cut(s)	730, 760
Bsc4I	CCNNNNNNNGG	3 cut(s)	353, 545, 824
Bse118I	RCCGGY	2 cut(s)	11, 776
Bse1I	ACTGG	1 cut(s)	616
Bse3DI	GCAATG	2 cut(s)	641, 846
Bse8I	GATNNNNATC	1 cut(s)	429
BseBI	CCWGG	3 cut(s)	76, 261, 825
BseDI	CCNNGG	3 cut(s)	25, 84, 734
BseGI	GGATG	2 cut(s)	71, 94
BseJI	GATNNNNATC	1 cut(s)	429
BseLI	CCNNNNNNNGG	3 cut(s)	353, 545, 824
BseMI	GCAATG	2 cut(s)	641, 846
BseMII	CTCAG	2 cut(s)	579, 584
BseNI	ACTGG	1 cut(s)	616
BseSI	GKGCMC	2 cut(s)	160, 280
BseXI	GCAGC	5 cut(s)	305, 385, 430, 496, 857
BshFI	GGCC	6 cut(s)	24, 30, 79, 102, 259, 664
BshNI	GGYRCC	3 cut(s)	14, 155, 746
BsiSI	CCGG	5 cut(s)	12, 86, 99, 108, 777
BslI	CCNNNNNNNGG	3 cut(s)	353, 545, 824
BsmAI	GTCTC	1 cut(s)	260
BsnI	GGCC	6 cut(s)	24, 30, 79, 102, 259, 664
Bsp1286I	GDGCHC	2 cut(s)	160, 280
BspACI	CCGC	3 cut(s)	45, 81, 104
BspANI	GGCC	6 cut(s)	24, 30, 79, 102, 259, 664
BspCNI	CTCAG	2 cut(s)	580, 583
BspLI	GGNNCC	4 cut(s)	16, 157, 345, 748
BspMAI	CTGCAG	1 cut(s)	806
BspMI	ACCTGC	2 cut(s)	470, 809
BspT107I	GGYRCC	3 cut(s)	14, 155, 746
BsrDI	GCAATG	2 cut(s)	641, 846
BsrFI	RCCGGY	2 cut(s)	11, 776
BsrI	ACTGG	1 cut(s)	616
BssAI	RCCGGY	2 cut(s)	11, 776
BssECI	CCNNGG	3 cut(s)	25, 84, 734
BssNI	GRCGYC	2 cut(s)	42, 56
BssT1I	CCWWGG	1 cut(s)	734
Bst2UI	CCWGG	3 cut(s)	76, 261, 825
Bst4CI	ACNGT	1 cut(s)	562
BstACI	GRCGYC	2 cut(s)	42, 56
BstC8I	GCNNGC	6 cut(s)	13, 81, 104, 239, 666, 723
BstDEI	CTNAG	2 cut(s)	570, 588
BstF5I	GGATG	2 cut(s)	71, 94
BstH2I	RGCGCY	1 cut(s)	470
BstHHI	GCGC	2 cut(s)	469, 634
BstMAI	GTCTC	1 cut(s)	260
BstMWI	GCNNNNNNNGC	9 cut(s)	21, 50, 89, 108, 117, 395, 506, 845, 854
BstNI	CCWGG	3 cut(s)	76, 261, 825
BstNSI	RCATGY	1 cut(s)	786
BstSCI	CCNGG	6 cut(s)	74, 84, 97, 106, 259, 823
BstSFI	CTRYAG	1 cut(s)	802
BstSLI	GKGCMC	2 cut(s)	160, 280
BstV1I	GCAGC	5 cut(s)	305, 385, 430, 496, 857
BstV2I	GAAGAC	1 cut(s)	614
BsuRI	GGCC	6 cut(s)	24, 30, 79, 102, 259, 664
BtsCI	GGATG	2 cut(s)	71, 94
BtsI	GCAGTG	1 cut(s)	675
BtsIMutI	CAGTG	1 cut(s)	675
BveI	ACCTGC	2 cut(s)	470, 809
Cac8I	GCNNGC	6 cut(s)	13, 81, 104, 239, 666, 723
CfoI	GCGC	2 cut(s)	469, 634
Cfr10I	RCCGGY	2 cut(s)	11, 776
Cfr13I	GGNCC	3 cut(s)	29, 78, 101
CseI	GACGC	1 cut(s)	50
Csp6I	GTAC	1 cut(s)	4
CviAII	CATG	2 cut(s)	490, 783
CviQI	GTAC	1 cut(s)	4
DdeI	CTNAG	2 cut(s)	570, 588
Eco130I	CCWWGG	1 cut(s)	734
Eco32I	GATATC	1 cut(s)	427
Eco57I	CTGAAG	2 cut(s)	147, 456
EcoRII	CCWGG	3 cut(s)	74, 259, 823
EcoRV	GATATC	1 cut(s)	427
EcoT14I	CCWWGG	1 cut(s)	734
ErhI	CCWWGG	1 cut(s)	734
FaeI	CATG	2 cut(s)	493, 786
FatI	CATG	2 cut(s)	489, 782
FauI	CCCGC	2 cut(s)	88, 111
Fnu4HI	GCNGC	6 cut(s)	45, 319, 399, 444, 510, 846
FokI	GGATG	2 cut(s)	58, 101
Fsp4HI	GCNGC	6 cut(s)	45, 319, 399, 444, 510, 846
FspBI	CTAG	3 cut(s)	219, 390, 735
FspI	TGCGCA	1 cut(s)	633
GlaI	GCGC	2 cut(s)	468, 633
GluI	GCNGC	6 cut(s)	45, 319, 399, 444, 510, 846
HaeII	RGCGCY	1 cut(s)	470
HaeIII	GGCC	6 cut(s)	24, 30, 79, 102, 259, 664
HapII	CCGG	5 cut(s)	12, 86, 99, 108, 777
HgaI	GACGC	1 cut(s)	50
HhaI	GCGC	2 cut(s)	469, 634
Hin1I	GRCGYC	2 cut(s)	42, 56
Hin1II	CATG	2 cut(s)	493, 786
Hin6I	GCGC	2 cut(s)	467, 632
HinP1I	GCGC	2 cut(s)	467, 632
HincII	GTYRAC	1 cut(s)	681
HindII	GTYRAC	1 cut(s)	681
HindIII	AAGCTT	2 cut(s)	183, 235
HinfI	GANTC	5 cut(s)	222, 357, 553, 642, 866
HpaII	CCGG	5 cut(s)	12, 86, 99, 108, 777
HphI	GGTGA	1 cut(s)	641
Hpy166II	GTNNAC	1 cut(s)	681
Hpy188I	TCNGA	5 cut(s)	40, 127, 168, 573, 865
Hpy188III	TCNNGA	2 cut(s)	226, 347
Hpy8I	GTNNAC	1 cut(s)	681
Hpy99I	CGWCG	3 cut(s)	44, 58, 61
HpyAV	CCTTC	2 cut(s)	480, 523
HpyCH4III	ACNGT	1 cut(s)	562
HpyCH4IV	ACGT	2 cut(s)	56, 542
HpyCH4V	TGCA	9 cut(s)	289, 321, 401, 446, 479, 639, 786, 797, 804
HpyF10VI	GCNNNNNNNGC	9 cut(s)	21, 50, 89, 108, 117, 395, 506, 845, 854
HpyF3I	CTNAG	2 cut(s)	570, 588
HpySE526I	ACGT	2 cut(s)	56, 542
Hsp92I	GRCGYC	2 cut(s)	42, 56
Hsp92II	CATG	2 cut(s)	493, 786
HspAI	GCGC	2 cut(s)	467, 632
KroI	GCCGGC	1 cut(s)	11
KroNI	GCCGGC	1 cut(s)	13
LmnI	GCTCC	1 cut(s)	548
Lsp1109I	GCAGC	5 cut(s)	305, 385, 430, 496, 857
LweI	GCATC	1 cut(s)	79
MaeI	CTAG	3 cut(s)	219, 390, 735
MaeII	ACGT	2 cut(s)	56, 542
MboII	GAAGA	1 cut(s)	619
MhlI	GDGCHC	2 cut(s)	160, 280
MluCI	AATT	2 cut(s)	305, 418
MlyI	GAGTC	1 cut(s)	562
MmeI	TCCRAC	1 cut(s)	63
MroNI	GCCGGC	1 cut(s)	11
MseI	TTAA	2 cut(s)	486, 771
MspA1I	CMGCKG	1 cut(s)	509
MspI	CCGG	5 cut(s)	12, 86, 99, 108, 777
MspR9I	CCNGG	6 cut(s)	76, 86, 99, 108, 261, 825
MvaI	CCWGG	3 cut(s)	76, 261, 825
MwoI	GCNNNNNNNGC	9 cut(s)	21, 50, 89, 108, 117, 395, 506, 845, 854
NaeI	GCCGGC	1 cut(s)	13
NciI	CCSGG	3 cut(s)	86, 99, 108
NgoMIV	GCCGGC	1 cut(s)	11
NlaIII	CATG	2 cut(s)	493, 786
NlaIV	GGNNCC	4 cut(s)	16, 157, 345, 748
NmeAIII	GCCGAG	1 cut(s)	6
NsbI	TGCGCA	1 cut(s)	633
NspI	RCATGY	1 cut(s)	786
PcsI	WCGNNNNNNNCGW	1 cut(s)	548
PdiI	GCCGGC	1 cut(s)	13
PfeI	GAWTC	4 cut(s)	222, 357, 642, 866
PflMI	CCANNNNNTGG	1 cut(s)	824
PkrI	GCNGC	6 cut(s)	46, 320, 400, 445, 511, 847
PleI	GAGTC	1 cut(s)	561
PpsI	GAGTC	1 cut(s)	561
Psp1406I	AACGTT	1 cut(s)	542
Psp6I	CCWGG	3 cut(s)	74, 259, 823
PspGI	CCWGG	3 cut(s)	74, 259, 823
PspN4I	GGNNCC	4 cut(s)	16, 157, 345, 748
PspPI	GGNCC	3 cut(s)	29, 78, 101
PstI	CTGCAG	1 cut(s)	806
PvuII	CAGCTG	1 cut(s)	509
RsaI	GTAC	1 cut(s)	5
RsaNI	GTAC	1 cut(s)	4
SaqAI	TTAA	2 cut(s)	486, 771
SatI	GCNGC	6 cut(s)	45, 319, 399, 444, 510, 846
Sau96I	GGNCC	3 cut(s)	29, 78, 101
SchI	GAGTC	1 cut(s)	562
ScrFI	CCNGG	6 cut(s)	76, 86, 99, 108, 261, 825
SduI	GDGCHC	2 cut(s)	160, 280
SfaNI	GCATC	1 cut(s)	79
SfcI	CTRYAG	1 cut(s)	802
Sse9I	AATT	2 cut(s)	305, 418
SsiI	CCGC	3 cut(s)	45, 81, 104
SspMI	CTAG	3 cut(s)	219, 390, 735
StyD4I	CCNGG	6 cut(s)	74, 84, 97, 106, 259, 823
StyI	CCWWGG	1 cut(s)	734
TaaI	ACNGT	1 cut(s)	562
TaiI	ACGT	2 cut(s)	59, 545
TaqI	TCGA	1 cut(s)	225
TasI	AATT	2 cut(s)	305, 418
TauI	GCSGC	1 cut(s)	47
TfiI	GAWTC	4 cut(s)	222, 357, 642, 866
Tru1I	TTAA	2 cut(s)	486, 771
Tru9I	TTAA	2 cut(s)	486, 771
TscAI	CASTG	1 cut(s)	675
TseI	GCWGC	5 cut(s)	318, 398, 443, 509, 845
TspDTI	ATGAA	1 cut(s)	620
TspGWI	ACGGA	1 cut(s)	746
TspRI	CASTG	1 cut(s)	675
Van91I	CCANNNNNTGG	1 cut(s)	824
XapI	RAATTY	2 cut(s)	305, 418
XceI	RCATGY	1 cut(s)	786
XcmI	CCANNNNNNNNNTGG	2 cut(s)	167, 821
XmaJI	CCTAGG	1 cut(s)	734
XspI	CTAG	3 cut(s)	219, 390, 735
ZraI	GACGTC	1 cut(s)	57

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