Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0010103

Physical Location & Seq

Genomic Coordinates Forward (+)

171353 .. 174234

Gene Structure 2882 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00332810.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1071 bp

ATGCCTGTAAAGAGAGAACCGTGCAGATACTTTCAGCGTGGCAGCTGTCAGTATGGAGATAAGTGTAGATATCTTCATGTGACTCAGCAACAGCCAAAGTCGAATATCTTTGGTGGATTTGGGTCCCAATCTGGCTCCGATCAGCACCAAAAGTCCAATCCTTATGGTTTTGGTGTTCAAAGCAACTCTCAGTCAAAAGCGGGAAGTGATAAGCCTTTCGAAAACAAATGGACTCGTTCCTCCCCCACAACTGCTACTCCTTCATCACGGAGATCTGATAACCAGCCCCAGACAACAAATCATGATTCTCCTTGTGATATTGTTGGTGATGTTAGTTATGAAGAATTGAGGGCACTGGCATATGATGATGCTAAGCGAGGGCTGAACTTGCCGTCAATAATTGATAGAGAACGAAATCTGGTTAATACCAAGTCTATTGAGTTTGAAAATCTTCGCAAGCCCCGTGCTGTTCCACTGAACTCTACTGTTAGCCAAAGCCCTTTCGCTTCAGCTACTGCAAATGCATTCTTGCAGACTCCTCAAAGTAGTGCTCCTCCTTCAGTATCGAGTTTCAGCCAGTTTGGTACATCCCTCAACGTGGGATTTGGACAAAGGCAAGTCTCACTTCTCATATTTAGACTACATTGGCCATCTGCACCAGCAAATAATGGTTTTTTTCAGCCGAGCCTGTTCATGAATTCTAGCCATGCTTCAAGTGGATTTGGGACAAACAATATTCCATCTGCAAATGTTGGTAAGACTGTTTTGTTTCAGTGGATTTCAATGTGTGACTTTGATGCTCATGTGGCATTGGTCTGGTTAATTGGAATGGAACAAATAGGTTCACTTGCCAGCCAATCTCATAACAGTACACGTGGAAGTATTTTTACCCACAATGTAGGATTTGGCAACAGTGATGTCATGAGACCTGACAGCAACCAAATATCTAGTTCAGCAGTGCCATCACAATTTCCTAGTGCTACAAGTAGCCAGCCACTTATTGTTTCAGCCGGGCCTAGCTCAGCTGCCATTTCAAGTGGACAAGTAACTGCAGAAGCTCAGTCACTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005635 GO:0005737 GO:0008150 GO:0009966 GO:0009968 GO:0010646 GO:0010648 GO:0012505 GO:0023051 GO:0023057 GO:0031967 GO:0031975 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0048519 GO:0048523 GO:0048583 GO:0048585 GO:0050789 GO:0050794 GO:0065007 GO:0097159 GO:1900457 GO:1900458 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko03013 map03013

Pfam Domains

Protein Families

zf-CCCH

Protein Analysis

356

Amino Acids

38.44

Weight (kDa)

8.99

Isoelectric Point (pI)

59.32

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-CCCH	PF00642	4 - 27	4.5e-09	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf-CCCH_4	PF18044	7 - 26	1.4e-08	CCCH-type zinc finger
zf_CCCH_4	PF18345	8 - 26	1.4e-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

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0010103)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G75340 AT1G75340 AT1G75340
fragaria_vesca	FvH4_4g00131
malus_domestica	MD04G1000600.v1.1
prunus_persica	Prupe.1G000600_v2.0.a1 Prupe.1G000600_v2.0.a1 Prupe.1G000600_v2.0.a1 Prupe.1G000600_v2.0.a1 Prupe.1G000600_v2.0.a1
rosa_chinensis	RchiOBHm_Chr4g0384751
rosa_laevigata	RLG00000010275
rosa_multiflora	Rmu_sc0001322.1_g000021
rosa_roxburghii	Rroxscaffold_5G00332810
rosa_rugosa	Rorug03G0297500
rosa_samantha	Rh4AG000900 Rh4BG000800 Rh4CG000700 Rh4DG000800
rosa_wichuraiana	Rw0G021990 Rw4G000800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	200
AcoI	YGGCCR	1 cut(s)	647
AcsI	RAATTY	1 cut(s)	697
AcuI	CTGAAG	2 cut(s)	492, 543
AcvI	CACGTG	1 cut(s)	875
AfaI	GTAC	2 cut(s)	586, 871
AfiI	CCNNNNNNNGG	1 cut(s)	598
AflIII	ACRYGT	1 cut(s)	872
AgsI	TTSAA	5 cut(s)	179, 446, 714, 783, 1035
AluBI	AGCT	5 cut(s)	45, 512, 1020, 1025, 1058
AluI	AGCT	5 cut(s)	45, 512, 1020, 1025, 1058
Alw21I	GWGCWC	1 cut(s)	553
Alw26I	GTCTC	2 cut(s)	625, 919
AlwNI	CAGNNNCTG	2 cut(s)	515, 1066
AoxI	GGCC	2 cut(s)	647, 1013
ApeKI	GCWGC	2 cut(s)	42, 1025
ApoI	RAATTY	1 cut(s)	697
Asp700I	GAANNNNTTC	1 cut(s)	450
AspS9I	GGNCC	2 cut(s)	123, 1013
AsuC2I	CCSGG	1 cut(s)	1012
AsuHPI	GGTGA	1 cut(s)	338
AsuII	TTCGAA	1 cut(s)	219
AvaII	GGWCC	1 cut(s)	123
BaeGI	GKGCMC	1 cut(s)	355
BalI	TGGCCA	1 cut(s)	649
BarI	GAAGNNNNNNTAC	2 cut(s)	871, 903
BbrPI	CACGTG	1 cut(s)	875
Bbv12I	GWGCWC	1 cut(s)	553
BbvI	GCAGC	2 cut(s)	54, 1012
BccI	CCATC	3 cut(s)	658, 748, 970
BceAI	ACGGC	1 cut(s)	376
BcnI	CCSGG	1 cut(s)	1012
BcoDI	GTCTC	2 cut(s)	625, 919
BfaI	CTAG	4 cut(s)	702, 948, 975, 1017
BfmI	CTRYAG	1 cut(s)	1050
BglII	AGATCT	1 cut(s)	272
BisI	GCNGC	2 cut(s)	43, 1026
BlpI	GCTNAGC	2 cut(s)	372, 1021
BlsI	GCNGC	2 cut(s)	44, 1027
Bme1390I	CCNGG	1 cut(s)	1012
Bme18I	GGWCC	1 cut(s)	123
BmgT120I	GGNCC	2 cut(s)	123, 1013
BmiI	GGNNCC	3 cut(s)	124, 125, 136
BmrFI	CCNGG	1 cut(s)	1012
BmsI	GCATC	2 cut(s)	358, 787
Bpu1102I	GCTNAGC	2 cut(s)	372, 1021
Bpu14I	TTCGAA	1 cut(s)	219
BpuMI	CCSGG	1 cut(s)	1012
BsaAI	YACGTR	1 cut(s)	875
BsaI	GGTCTC	1 cut(s)	919
BsaXI	ACNNNNNCTCC	2 cut(s)	241, 271
Bsc4I	CCNNNNNNNGG	1 cut(s)	598
Bse1I	ACTGG	2 cut(s)	360, 577
BseGI	GGATG	1 cut(s)	587
BseLI	CCNNNNNNNGG	1 cut(s)	598
BseMII	CTCAG	3 cut(s)	98, 203, 1035
BseNI	ACTGG	2 cut(s)	360, 577
BseRI	GAGGAG	2 cut(s)	528, 543
BseSI	GKGCMC	1 cut(s)	355
BseXI	GCAGC	2 cut(s)	54, 1012
BsgI	GTGCAG	2 cut(s)	43, 639
BshFI	GGCC	2 cut(s)	649, 1015
BsiHKAI	GWGCWC	1 cut(s)	553
BsiSI	CCGG	1 cut(s)	1011
BslFI	GGGAC	2 cut(s)	109, 739
BslI	CCNNNNNNNGG	1 cut(s)	598
BsmAI	GTCTC	2 cut(s)	625, 919
BsmFI	GGGAC	2 cut(s)	109, 739
BsmI	GAATGC	1 cut(s)	524
BsnI	GGCC	2 cut(s)	649, 1015
Bso31I	GGTCTC	1 cut(s)	919
Bsp119I	TTCGAA	1 cut(s)	219
Bsp1286I	GDGCHC	2 cut(s)	355, 553
Bsp143I	GATC	2 cut(s)	139, 272
Bsp1720I	GCTNAGC	2 cut(s)	372, 1021
BspACI	CCGC	1 cut(s)	200
BspANI	GGCC	2 cut(s)	649, 1015
BspCNI	CTCAG	3 cut(s)	97, 202, 1034
BspHI	TCATGA	3 cut(s)	301, 693, 921
BspLI	GGNNCC	3 cut(s)	124, 125, 136
BspMAI	CTGCAG	1 cut(s)	1054
BspT104I	TTCGAA	1 cut(s)	219
BspTNI	GGTCTC	1 cut(s)	919
BsrI	ACTGG	2 cut(s)	360, 577
BssMI	GATC	2 cut(s)	139, 272
Bst4CI	ACNGT	6 cut(s)	21, 487, 763, 869, 914, 1068
BstBAI	YACGTR	1 cut(s)	875
BstBI	TTCGAA	1 cut(s)	219
BstC8I	GCNNGC	3 cut(s)	458, 853, 992
BstDEI	CTNAG	5 cut(s)	84, 189, 372, 1021, 1059
BstF5I	GGATG	1 cut(s)	587
BstKTI	GATC	2 cut(s)	142, 275
BstMAI	GTCTC	2 cut(s)	625, 919
BstMBI	GATC	2 cut(s)	139, 272
BstMWI	GCNNNNNNNGC	2 cut(s)	388, 806
BstSCI	CCNGG	1 cut(s)	1010
BstSFI	CTRYAG	1 cut(s)	1050
BstSLI	GKGCMC	1 cut(s)	355
BstV1I	GCAGC	2 cut(s)	54, 1012
BstX2I	RGATCY	1 cut(s)	272
BstYI	RGATCY	1 cut(s)	272
BsuRI	GGCC	2 cut(s)	649, 1015
BtsCI	GGATG	1 cut(s)	587
BtsI	GCAGTG	1 cut(s)	963
BtsIMutI	CAGTG	6 cut(s)	353, 473, 779, 919, 963, 1064
Cac8I	GCNNGC	3 cut(s)	458, 853, 992
CaiI	CAGNNNCTG	2 cut(s)	515, 1066
CciI	TCATGA	3 cut(s)	301, 693, 921
Cfr13I	GGNCC	2 cut(s)	123, 1013
Csp6I	GTAC	2 cut(s)	585, 870
CviAII	CATG	6 cut(s)	77, 302, 694, 707, 803, 922
CviQI	GTAC	2 cut(s)	585, 870
DdeI	CTNAG	5 cut(s)	84, 189, 372, 1021, 1059
DpnI	GATC	2 cut(s)	141, 274
DpnII	GATC	2 cut(s)	139, 272
EaeI	YGGCCR	1 cut(s)	647
Eco31I	GGTCTC	1 cut(s)	919
Eco32I	GATATC	1 cut(s)	71
Eco47I	GGWCC	1 cut(s)	123
Eco57I	CTGAAG	2 cut(s)	492, 543
Eco72I	CACGTG	1 cut(s)	875
EcoO109I	RGGNCCY	1 cut(s)	123
EcoRI	GAATTC	1 cut(s)	697
EcoRV	GATATC	1 cut(s)	71
EcoT22I	ATGCAT	1 cut(s)	526
FaeI	CATG	6 cut(s)	80, 305, 697, 710, 806, 925
FalI	AAGNNNNNCTT	2 cut(s)	609, 641
FaqI	GGGAC	2 cut(s)	109, 739
FatI	CATG	6 cut(s)	76, 301, 693, 706, 802, 921
FauI	CCCGC	1 cut(s)	193
FauNDI	CATATG	1 cut(s)	361
Fnu4HI	GCNGC	2 cut(s)	43, 1026
FokI	GGATG	1 cut(s)	574
Fsp4HI	GCNGC	2 cut(s)	43, 1026
FspBI	CTAG	4 cut(s)	702, 948, 975, 1017
GluI	GCNGC	2 cut(s)	43, 1026
HaeIII	GGCC	2 cut(s)	649, 1015
HapII	CCGG	1 cut(s)	1011
Hin1II	CATG	6 cut(s)	80, 305, 697, 710, 806, 925
HinfI	GANTC	4 cut(s)	82, 232, 305, 535
HpaII	CCGG	1 cut(s)	1011
HphI	GGTGA	1 cut(s)	338
Hpy166II	GTNNAC	3 cut(s)	845, 872, 1040
Hpy188I	TCNGA	2 cut(s)	139, 277
Hpy188III	TCNNGA	3 cut(s)	302, 694, 922
Hpy8I	GTNNAC	3 cut(s)	845, 872, 1040
HpyAV	CCTTC	2 cut(s)	270, 567
HpyCH4III	ACNGT	6 cut(s)	21, 487, 763, 869, 914, 1068
HpyCH4IV	ACGT	2 cut(s)	597, 874
HpyCH4V	TGCA	7 cut(s)	24, 518, 524, 532, 656, 746, 1052
HpyF10VI	GCNNNNNNNGC	2 cut(s)	388, 806
HpyF3I	CTNAG	5 cut(s)	84, 189, 372, 1021, 1059
HpySE526I	ACGT	2 cut(s)	597, 874
Hsp92II	CATG	6 cut(s)	80, 305, 697, 710, 806, 925
KflI	GGGWCCC	1 cut(s)	123
Kzo9I	GATC	2 cut(s)	139, 272
LmnI	GCTCC	2 cut(s)	140, 556
Lsp1109I	GCAGC	2 cut(s)	54, 1012
LweI	GCATC	2 cut(s)	358, 787
MaeI	CTAG	4 cut(s)	702, 948, 975, 1017
MaeII	ACGT	2 cut(s)	597, 874
MaeIII	GTNAC	4 cut(s)	79, 788, 1045, 1062
MalI	GATC	2 cut(s)	141, 274
MboI	GATC	2 cut(s)	139, 272
MboII	GAAGA	3 cut(s)	65, 353, 443
MflI	RGATCY	1 cut(s)	272
MhlI	GDGCHC	2 cut(s)	355, 553
MlsI	TGGCCA	1 cut(s)	649
MluCI	AATT	5 cut(s)	344, 399, 697, 822, 968
MluNI	TGGCCA	1 cut(s)	649
MlyI	GAGTC	3 cut(s)	76, 226, 529
MnlI	CCTC	6 cut(s)	250, 342, 371, 549, 564, 602
Mox20I	TGGCCA	1 cut(s)	649
Mph1103I	ATGCAT	1 cut(s)	526
MroXI	GAANNNNTTC	1 cut(s)	450
MscI	TGGCCA	1 cut(s)	649
MseI	TTAA	2 cut(s)	423, 821
Msp20I	TGGCCA	1 cut(s)	649
MspA1I	CMGCKG	2 cut(s)	45, 1025
MspI	CCGG	1 cut(s)	1011
MspR9I	CCNGG	1 cut(s)	1012
Mva1269I	GAATGC	1 cut(s)	524
MwoI	GCNNNNNNNGC	2 cut(s)	388, 806
NciI	CCSGG	1 cut(s)	1012
NdeI	CATATG	1 cut(s)	361
NdeII	GATC	2 cut(s)	139, 272
NlaIII	CATG	6 cut(s)	80, 305, 697, 710, 806, 925
NlaIV	GGNNCC	3 cut(s)	124, 125, 136
NmeAIII	GCCGAG	1 cut(s)	708
NmuCI	GTSAC	3 cut(s)	79, 788, 1062
NsiI	ATGCAT	1 cut(s)	526
NspV	TTCGAA	1 cut(s)	219
PagI	TCATGA	3 cut(s)	301, 693, 921
PcsI	WCGNNNNNNNCGW	1 cut(s)	460
PctI	GAATGC	1 cut(s)	524
PdmI	GAANNNNTTC	1 cut(s)	450
PfeI	GAWTC	1 cut(s)	305
PkrI	GCNGC	2 cut(s)	44, 1027
PleI	GAGTC	3 cut(s)	76, 226, 529
PmaCI	CACGTG	1 cut(s)	875
PmlI	CACGTG	1 cut(s)	875
PpsI	GAGTC	3 cut(s)	76, 226, 529
Ppu21I	YACGTR	1 cut(s)	875
PpuMI	RGGWCCY	1 cut(s)	123
Psp5II	RGGWCCY	1 cut(s)	123
PspCI	CACGTG	1 cut(s)	875
PspN4I	GGNNCC	3 cut(s)	124, 125, 136
PspPI	GGNCC	2 cut(s)	123, 1013
PspPPI	RGGWCCY	1 cut(s)	123
PstI	CTGCAG	1 cut(s)	1054
PstNI	CAGNNNCTG	2 cut(s)	515, 1066
PsuI	RGATCY	1 cut(s)	272
PvuII	CAGCTG	2 cut(s)	45, 1025
RsaI	GTAC	2 cut(s)	586, 871
RsaNI	GTAC	2 cut(s)	585, 870
SaqAI	TTAA	2 cut(s)	423, 821
SatI	GCNGC	2 cut(s)	43, 1026
Sau3AI	GATC	2 cut(s)	139, 272
Sau96I	GGNCC	2 cut(s)	123, 1013
SchI	GAGTC	3 cut(s)	76, 226, 529
ScrFI	CCNGG	1 cut(s)	1012
SduI	GDGCHC	2 cut(s)	355, 553
SetI	ASST	9 cut(s)	47, 514, 600, 844, 877, 931, 1022, 1027, 1060
SfaNI	GCATC	2 cut(s)	358, 787
SfcI	CTRYAG	1 cut(s)	1050
SfuI	TTCGAA	1 cut(s)	219
SinI	GGWCC	1 cut(s)	123
Sse9I	AATT	5 cut(s)	344, 399, 697, 822, 968
SsiI	CCGC	1 cut(s)	200
SspI	AATATT	1 cut(s)	736
SspMI	CTAG	4 cut(s)	702, 948, 975, 1017
StyD4I	CCNGG	1 cut(s)	1010
TaaI	ACNGT	6 cut(s)	21, 487, 763, 869, 914, 1068
TaiI	ACGT	2 cut(s)	600, 877
TaqI	TCGA	3 cut(s)	101, 219, 566
TasI	AATT	5 cut(s)	344, 399, 697, 822, 968
TatI	WGTACW	1 cut(s)	869
TfiI	GAWTC	1 cut(s)	305
Tru1I	TTAA	2 cut(s)	423, 821
Tru9I	TTAA	2 cut(s)	423, 821
TscAI	CASTG	6 cut(s)	360, 480, 779, 919, 963, 1071
TseFI	GTSAC	3 cut(s)	79, 788, 1062
TseI	GCWGC	2 cut(s)	42, 1025
Tsp45I	GTSAC	3 cut(s)	79, 788, 1062
TspDTI	ATGAA	5 cut(s)	65, 252, 354, 682, 710
TspGWI	ACGGA	1 cut(s)	283
TspRI	CASTG	6 cut(s)	360, 480, 779, 919, 963, 1071
VpaK11BI	GGWCC	1 cut(s)	123
XapI	RAATTY	1 cut(s)	697
XcmI	CCANNNNNNNNNTGG	1 cut(s)	713
XmnI	GAANNNNTTC	1 cut(s)	450
XspI	CTAG	4 cut(s)	702, 948, 975, 1017
Zsp2I	ATGCAT	1 cut(s)	526

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