Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0002873

Physical Location & Seq

Genomic Coordinates Forward (+)

47226209 .. 47229277

Gene Structure 3069 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG370200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 612 bp

ATGGGAGTTCCAGCTTTCTATAGATGGCTAGCGGAGAAGTATCCACTCGTCGTCGTCGATGTGGTGGAAGAAGAACCGGTTGTAATCGACGACGTTTCGATTCCGGTCCACACCAGTAAGCCAAATCCTAACGGCGAGATTGTGCTTGGTAATGGCTGCGATTGTTTTGATTCAGCTCTGAGTTATTGGCTTTGGTTGCATGCCCTGAAAGGGAAGCGAAACAGGTTATGGTTCCGGGCCTACTGGCAAGAATTGGTTCTGGTTATGATGATCTCTGCATATGCTGCCTCGACATCCGACGACATTGCACCTGCAATTTCACTCACAGAGAATGCATCAAAGCACTTCAATAAGATGAGATCCAAACATAATGAGGATCTATGCCTGGGAATTGGTGTTAAACAGGGTGGATATTCGGGCATGTTCCGCAATCGGAAAGCTCTAAACTTGACTGCACCCAGACCTTCTACTACTCCCAACCTTTCTCATCATCAGTGTAAGCAGCAGAAAAGATGGACCCATGGGTCACAGAGAGCTTCTAGAGTTGTTGCTTACTATGGCTTGAAGGAACCACCTTATAAACTTGATGCTTTGGAACCCTATATGAGTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000966 GO:0000967 GO:0003674 GO:0003824 GO:0004518 GO:0004527 GO:0004532 GO:0004534 GO:0004540 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006364 GO:0006396 GO:0006401 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008409 GO:0009056 GO:0009057 GO:0009893 GO:0009987 GO:0010467 GO:0010468 GO:0010586 GO:0010587 GO:0010604 GO:0010628 GO:0016070 GO:0016072 GO:0016075 GO:0016787 GO:0016788 GO:0016796 GO:0016896 GO:0019222 GO:0019439 GO:0022613 GO:0034470 GO:0034471 GO:0034641 GO:0034655 GO:0034660 GO:0034661 GO:0042254 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043632 GO:0043633 GO:0043634 GO:0044085 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044265 GO:0044270 GO:0044424 GO:0044464 GO:0046483 GO:0046700 GO:0048518 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0060147 GO:0060149 GO:0060255 GO:0060968 GO:0060969 GO:0065007 GO:0071025 GO:0071027 GO:0071029 GO:0071035 GO:0071046 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0090501 GO:0090503 GO:0140098 GO:1901360 GO:1901361 GO:1901575

KEGG Pathways

Metabolic & Signaling

ko03008 ko03018 map03008 map03018

Pfam Domains

Protein Families

XRN_N zf-CCHC

Protein Analysis

203

Amino Acids

23.0

Weight (kDa)

8.99

Isoelectric Point (pI)

54.36

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0002873)

Species	Orthologous Gene IDs
malus_domestica	MD15G1369000.v1.1
rosa_chinensis	RchiOBHm_Chr2g0158691 RchiOBHm_Chr3g0461771 RchiOBHm_Chr3g0477511 RchiOBHm_Chr4g0391611 RchiOBHm_Chr5g0060841 RchiOBHm_Chr5g0074511 RchiOBHm_Chr5g0074521 RchiOBHm_Chr6g0248211
rosa_laevigata	RLG00000001875 RLG00000032521
rosa_multiflora	Rmu_sc0001803.1_g000035 Rmu_sc0002942.1_g000044 Rmu_sc0005455.1_g000008 Rmu_sc0006619.1_g000001 Rmu_sc0015767.1_g000001 Rmu_sc0034909.1_g000001
rosa_roxburghii	Rroxscaffold_2G00094060 Rroxscaffold_2G00116020 Rroxscaffold_3G00235080 Rroxscaffold_5G00358150 Rroxscaffold_5G00359750
rosa_rugosa	Rorug05G0328100 Rorug05G0352400 Rorug07G0018800 Rorug07G0018900
rosa_samantha	Rh2AG426900 Rh2BG244900 Rh2BG245000 Rh2BG415100 Rh3BG245300 Rh3CG117000 Rh3CG370200 Rh3CG370300 Rh4DG044300 Rh5DG334900 Rh5DG403500 Rh6CG125700 Rh7CG192300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	579
AarI	CACCTGC	1 cut(s)	319
AasI	GACNNNNNNGTC	1 cut(s)	523
Acc36I	ACCTGC	1 cut(s)	319
AciI	CCGC	2 cut(s)	32, 427
AclWI	GGATC	2 cut(s)	354, 384
AfiI	CCNNNNNNNGG	1 cut(s)	210
AgeI	ACCGGT	1 cut(s)	76
AgsI	TTSAA	2 cut(s)	349, 565
AjnI	CCWGG	1 cut(s)	384
AluBI	AGCT	4 cut(s)	14, 176, 440, 536
AluI	AGCT	4 cut(s)	14, 176, 440, 536
AlwI	GGATC	2 cut(s)	354, 384
AoxI	GGCC	1 cut(s)	237
ApeKI	GCWGC	3 cut(s)	156, 284, 502
AsiGI	ACCGGT	1 cut(s)	76
Asp700I	GAANNNNTTC	1 cut(s)	255
AspS9I	GGNCC	3 cut(s)	106, 237, 516
AsuC2I	CCSGG	1 cut(s)	236
AsuNHI	GCTAGC	1 cut(s)	28
AvaII	GGWCC	2 cut(s)	106, 516
BbvI	GCAGC	3 cut(s)	143, 271, 514
BccI	CCATC	2 cut(s)	18, 507
BceAI	ACGGC	1 cut(s)	148
BcgI	CGANNNNNNTGC	2 cut(s)	287, 321
BciT130I	CCWGG	1 cut(s)	386
BciVI	GTATCC	1 cut(s)	51
BcnI	CCSGG	1 cut(s)	236
BfaI	CTAG	2 cut(s)	29, 540
BfmI	CTRYAG	1 cut(s)	19
BfuAI	ACCTGC	1 cut(s)	319
BfuI	GTATCC	1 cut(s)	51
BisI	GCNGC	3 cut(s)	157, 285, 503
BlsI	GCNGC	3 cut(s)	158, 286, 504
Bme1390I	CCNGG	2 cut(s)	236, 386
Bme18I	GGWCC	2 cut(s)	106, 516
BmgT120I	GGNCC	3 cut(s)	106, 237, 516
BmiI	GGNNCC	4 cut(s)	233, 518, 570, 597
BmrFI	CCNGG	2 cut(s)	236, 386
BmsI	GCATC	2 cut(s)	344, 577
BmtI	GCTAGC	1 cut(s)	32
BpuMI	CCSGG	1 cut(s)	236
BsaJI	CCNNGG	2 cut(s)	385, 520
BsaWI	WCCGGW	2 cut(s)	76, 103
Bsc4I	CCNNNNNNNGG	1 cut(s)	210
Bse118I	RCCGGY	1 cut(s)	76
Bse1I	ACTGG	2 cut(s)	114, 248
Bse3DI	GCAATG	1 cut(s)	303
BseBI	CCWGG	1 cut(s)	386
BseDI	CCNNGG	2 cut(s)	385, 520
BseGI	GGATG	1 cut(s)	293
BseLI	CCNNNNNNNGG	1 cut(s)	210
BseMI	GCAATG	1 cut(s)	303
BseMII	CTCAG	1 cut(s)	170
BseNI	ACTGG	2 cut(s)	114, 248
BseXI	GCAGC	3 cut(s)	143, 271, 514
BsgI	GTGCAG	1 cut(s)	438
BshFI	GGCC	1 cut(s)	239
BshTI	ACCGGT	1 cut(s)	76
BsiSI	CCGG	3 cut(s)	77, 104, 235
BslI	CCNNNNNNNGG	1 cut(s)	210
BsmI	GAATGC	1 cut(s)	337
BsnI	GGCC	1 cut(s)	239
Bsp143I	GATC	3 cut(s)	270, 359, 376
Bsp19I	CCATGG	1 cut(s)	520
BspACI	CCGC	2 cut(s)	32, 427
BspANI	GGCC	1 cut(s)	239
BspCNI	CTCAG	1 cut(s)	171
BspLI	GGNNCC	4 cut(s)	233, 518, 570, 597
BspMI	ACCTGC	1 cut(s)	319
BspOI	GCTAGC	1 cut(s)	32
BspPI	GGATC	2 cut(s)	354, 384
BsrDI	GCAATG	1 cut(s)	303
BsrFI	RCCGGY	1 cut(s)	76
BsrI	ACTGG	2 cut(s)	114, 248
BssAI	RCCGGY	1 cut(s)	76
BssECI	CCNNGG	2 cut(s)	385, 520
BssMI	GATC	3 cut(s)	270, 359, 376
BssT1I	CCWWGG	1 cut(s)	520
Bst2UI	CCWGG	1 cut(s)	386
BstAPI	GCANNNNNTGC	1 cut(s)	284
BstC8I	GCNNGC	2 cut(s)	30, 201
BstDEI	CTNAG	1 cut(s)	179
BstDSI	CCRYGG	1 cut(s)	520
BstF5I	GGATG	1 cut(s)	293
BstKTI	GATC	3 cut(s)	273, 362, 379
BstMBI	GATC	3 cut(s)	270, 359, 376
BstMWI	GCNNNNNNNGC	3 cut(s)	196, 284, 426
BstNI	CCWGG	1 cut(s)	386
BstNSI	RCATGY	2 cut(s)	203, 424
BstSCI	CCNGG	2 cut(s)	234, 384
BstSFI	CTRYAG	1 cut(s)	19
BstV1I	GCAGC	3 cut(s)	143, 271, 514
BstX2I	RGATCY	2 cut(s)	359, 376
BstYI	RGATCY	2 cut(s)	359, 376
BsuI	GTATCC	1 cut(s)	51
BsuRI	GGCC	1 cut(s)	239
BtgI	CCRYGG	1 cut(s)	520
BtsCI	GGATG	1 cut(s)	293
BtsIMutI	CAGTG	1 cut(s)	500
BveI	ACCTGC	1 cut(s)	319
Cac8I	GCNNGC	2 cut(s)	30, 201
Cfr10I	RCCGGY	1 cut(s)	76
Cfr13I	GGNCC	3 cut(s)	106, 237, 516
CspAI	ACCGGT	1 cut(s)	76
CviAII	CATG	3 cut(s)	200, 421, 521
DdeI	CTNAG	1 cut(s)	179
DpnI	GATC	3 cut(s)	272, 361, 378
DpnII	GATC	3 cut(s)	270, 359, 376
DrdI	GACNNNNNNGTC	1 cut(s)	523
DseDI	GACNNNNNNGTC	1 cut(s)	523
Eco130I	CCWWGG	1 cut(s)	520
Eco47I	GGWCC	2 cut(s)	106, 516
EcoRII	CCWGG	1 cut(s)	384
EcoT14I	CCWWGG	1 cut(s)	520
EcoT22I	ATGCAT	1 cut(s)	337
ErhI	CCWWGG	1 cut(s)	520
FaeI	CATG	3 cut(s)	203, 424, 524
FatI	CATG	3 cut(s)	199, 420, 520
FauNDI	CATATG	1 cut(s)	280
Fnu4HI	GCNGC	3 cut(s)	157, 285, 503
FokI	GGATG	1 cut(s)	280
Fsp4HI	GCNGC	3 cut(s)	157, 285, 503
FspBI	CTAG	2 cut(s)	29, 540
GluI	GCNGC	3 cut(s)	157, 285, 503
HaeIII	GGCC	1 cut(s)	239
HapII	CCGG	3 cut(s)	77, 104, 235
Hin1II	CATG	3 cut(s)	203, 424, 524
HinfI	GANTC	2 cut(s)	100, 170
HpaII	CCGG	3 cut(s)	77, 104, 235
Hpy166II	GTNNAC	1 cut(s)	109
Hpy188I	TCNGA	3 cut(s)	180, 298, 435
Hpy188III	TCNNGA	1 cut(s)	540
Hpy8I	GTNNAC	1 cut(s)	109
Hpy99I	CGWCG	6 cut(s)	53, 56, 59, 92, 95, 302
HpyAV	CCTTC	2 cut(s)	474, 559
HpyCH4IV	ACGT	1 cut(s)	93
HpyCH4V	TGCA	6 cut(s)	199, 278, 308, 314, 335, 455
HpyF10VI	GCNNNNNNNGC	3 cut(s)	196, 284, 426
HpyF3I	CTNAG	1 cut(s)	179
HpySE526I	ACGT	1 cut(s)	93
Hsp92II	CATG	3 cut(s)	203, 424, 524
Kzo9I	GATC	3 cut(s)	270, 359, 376
Lsp1109I	GCAGC	3 cut(s)	143, 271, 514
LweI	GCATC	2 cut(s)	344, 577
MaeI	CTAG	2 cut(s)	29, 540
MaeII	ACGT	1 cut(s)	93
MaeIII	GTNAC	1 cut(s)	525
MalI	GATC	3 cut(s)	272, 361, 378
MboI	GATC	3 cut(s)	270, 359, 376
MboII	GAAGA	2 cut(s)	80, 83
MflI	RGATCY	2 cut(s)	359, 376
MluCI	AATT	3 cut(s)	251, 315, 390
MmeI	TCCRAC	1 cut(s)	321
MnlI	CCTC	2 cut(s)	298, 367
Mph1103I	ATGCAT	1 cut(s)	337
MroXI	GAANNNNTTC	1 cut(s)	255
MseI	TTAA	1 cut(s)	399
MspI	CCGG	3 cut(s)	77, 104, 235
MspR9I	CCNGG	2 cut(s)	236, 386
Mva1269I	GAATGC	1 cut(s)	337
MvaI	CCWGG	1 cut(s)	386
MwoI	GCNNNNNNNGC	3 cut(s)	196, 284, 426
NciI	CCSGG	1 cut(s)	236
NcoI	CCATGG	1 cut(s)	520
NdeI	CATATG	1 cut(s)	280
NdeII	GATC	3 cut(s)	270, 359, 376
NheI	GCTAGC	1 cut(s)	28
NlaIII	CATG	3 cut(s)	203, 424, 524
NlaIV	GGNNCC	4 cut(s)	233, 518, 570, 597
NmuCI	GTSAC	1 cut(s)	525
NsiI	ATGCAT	1 cut(s)	337
NspI	RCATGY	2 cut(s)	203, 424
PaeI	GCATGC	1 cut(s)	203
PaqCI	CACCTGC	1 cut(s)	319
PcsI	WCGNNNNNNNCGW	1 cut(s)	54
PctI	GAATGC	1 cut(s)	337
PdmI	GAANNNNTTC	1 cut(s)	255
PfeI	GAWTC	2 cut(s)	100, 170
PinAI	ACCGGT	1 cut(s)	76
PkrI	GCNGC	3 cut(s)	158, 286, 504
PsiI	TTATAA	1 cut(s)	579
Psp6I	CCWGG	1 cut(s)	384
PspGI	CCWGG	1 cut(s)	384
PspN4I	GGNNCC	4 cut(s)	233, 518, 570, 597
PspPI	GGNCC	3 cut(s)	106, 237, 516
PsuI	RGATCY	2 cut(s)	359, 376
SaqAI	TTAA	1 cut(s)	399
SatI	GCNGC	3 cut(s)	157, 285, 503
Sau3AI	GATC	3 cut(s)	270, 359, 376
Sau96I	GGNCC	3 cut(s)	106, 237, 516
ScrFI	CCNGG	2 cut(s)	236, 386
SfaNI	GCATC	2 cut(s)	344, 577
SfcI	CTRYAG	1 cut(s)	19
SinI	GGWCC	2 cut(s)	106, 516
SphI	GCATGC	1 cut(s)	203
Sse9I	AATT	3 cut(s)	251, 315, 390
SsiI	CCGC	2 cut(s)	32, 427
SspMI	CTAG	2 cut(s)	29, 540
StyD4I	CCNGG	2 cut(s)	234, 384
StyI	CCWWGG	1 cut(s)	520
TaiI	ACGT	1 cut(s)	96
TaqI	TCGA	4 cut(s)	57, 87, 98, 290
TasI	AATT	3 cut(s)	251, 315, 390
TfiI	GAWTC	2 cut(s)	100, 170
Tru1I	TTAA	1 cut(s)	399
Tru9I	TTAA	1 cut(s)	399
TscAI	CASTG	1 cut(s)	500
TseFI	GTSAC	1 cut(s)	525
TseI	GCWGC	3 cut(s)	156, 284, 502
Tsp45I	GTSAC	1 cut(s)	525
TspRI	CASTG	1 cut(s)	500
VpaK11BI	GGWCC	2 cut(s)	106, 516
XbaI	TCTAGA	1 cut(s)	539
XceI	RCATGY	2 cut(s)	203, 424
XmnI	GAANNNNTTC	1 cut(s)	255
XspI	CTAG	2 cut(s)	29, 540
Zsp2I	ATGCAT	1 cut(s)	337

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