Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000003

Orthogroup ID

OG0004744

Physical Location & Seq

Genomic Coordinates Reverse (-)

24275800 .. 24279025

Gene Structure 3226 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug03G0255200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 498 bp

ATGGAAGTGATGGTGAAGAAATACCAGCATAGGTTCAGGAATGTGAGGGACGAGATGGAACTTGTTGATATTCAAGAGGTGGTGTTGGTGAAGCAGATGGAGTCTTTGCAAAAACTCTTGCTCTCCATGAAAAATACATGTACTTTCCTTTTGGAAGAGTTTCACTGCATTGTAATGTCTCTTGGGAGGATTCATCGTGATGGTAGGCACATGATAAAAGGTGGTTCTAGTCAGCTGAGTACAAAACAACTACAGCAGCGAGTTGGTGTAAAACCCACTCTTGCAGATTGCTTAGATGGGCTTATGCTTCTCCAGGACATGCATTGCTCTGAGCACATTTTGAAGTCGTCATTAGTTTCAGCTCTATCAGCACTTACCTTTAAAGTGAGTACCAGTGATTTGAGTTCGCTGCAGCAAATCTTGATTGATCAGCCTAACATTCCCAGGGAAGAAGTTCAATTTGTCTTTGATATCATATTTGCACAAGAGAATTGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000375 GO:0000377 GO:0000398 GO:0003006 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005684 GO:0005689 GO:0005730 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0008380 GO:0009555 GO:0009791 GO:0009846 GO:0009856 GO:0009892 GO:0009894 GO:0009895 GO:0009908 GO:0009987 GO:0010467 GO:0010605 GO:0016070 GO:0016071 GO:0019222 GO:0022414 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032991 GO:0034641 GO:0035670 GO:0042176 GO:0042177 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0044706 GO:0044877 GO:0046483 GO:0048229 GO:0048367 GO:0048437 GO:0048438 GO:0048440 GO:0048467 GO:0048481 GO:0048519 GO:0048608 GO:0048731 GO:0048827 GO:0048856 GO:0050789 GO:0051171 GO:0051172 GO:0051246 GO:0051248 GO:0051704 GO:0055046 GO:0060255 GO:0061458 GO:0065007 GO:0070013 GO:0071005 GO:0071011 GO:0071013 GO:0071704 GO:0080090 GO:0090304 GO:0090567 GO:0097159 GO:0099402 GO:1901360 GO:1901363 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

CPSF_A MMS1_N

Protein Analysis

165

Amino Acids

18.92

Weight (kDa)

6.29

Isoelectric Point (pI)

52.11

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CA109-like	PF15011	22 - 139	2.1e-26	Ribosome biogenesis protein C1orf109-like

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)

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Orthologous Genes (Group: OG0004744)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G55200 AT3G55200 AT3G55200 AT3G55220
fragaria_vesca	FvH4_1g28630
malus_domestica	MD01G1119800.v1.1 MD07G1189000.v1.1
prunus_persica	Prupe.2G226500_v2.0.a1 Prupe.2G226500_v2.0.a1
pyrus_communis	pycom07g17890
rosa_chinensis	RchiOBHm_Chr1g0365341 RchiOBHm_Chr3g0492631
rosa_laevigata	RLG00000022753 RLG00000027428
rosa_multiflora	Rmu_sc0000831.1_g000021 Rmu_sc0008527.1_g000001 Rmu_sc0010918.1_g000001
rosa_roxburghii	Rroxscaffold_4G00291290 Rroxscaffold_6G00392170
rosa_rugosa	Rorug01G0321300 Rorug03G0255200
rosa_samantha	Rh1AG330200 Rh1BG291700 Rh1CG308300 Rh1DG323400 Rh3AG305400 Rh3BG341900 Rh3CG339300 Rh3DG341200
rosa_wichuraiana	Rw1G029280 Rw3G026890

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AfaI	GTAC	3 cut(s)	142, 241, 391
AflIII	ACRYGT	1 cut(s)	137
AgsI	TTSAA	3 cut(s)	74, 343, 458
AjnI	CCWGG	2 cut(s)	312, 443
AluBI	AGCT	2 cut(s)	235, 362
AluI	AGCT	2 cut(s)	235, 362
Alw21I	GWGCWC	1 cut(s)	336
Alw26I	GTCTC	1 cut(s)	183
ApeKI	GCWGC	3 cut(s)	256, 409, 412
Asp700I	GAANNNNTTC	2 cut(s)	159, 453
AsuHPI	GGTGA	2 cut(s)	25, 100
Bbv12I	GWGCWC	1 cut(s)	336
BbvI	GCAGC	3 cut(s)	268, 396, 424
BccI	CCATC	5 cut(s)	4, 49, 91, 194, 290
BciT130I	CCWGG	2 cut(s)	314, 445
BclI	TGATCA	1 cut(s)	427
BcoDI	GTCTC	1 cut(s)	183
BfaI	CTAG	1 cut(s)	228
BfmI	CTRYAG	2 cut(s)	251, 410
BisI	GCNGC	3 cut(s)	257, 410, 413
BlsI	GCNGC	3 cut(s)	258, 411, 414
Bme1390I	CCNGG	2 cut(s)	314, 445
BmrFI	CCNGG	2 cut(s)	314, 445
BpmI	CTGGAG	1 cut(s)	296
BsaJI	CCNNGG	2 cut(s)	443, 444
Bse1I	ACTGG	1 cut(s)	393
Bse3DI	GCAATG	1 cut(s)	322
BseBI	CCWGG	2 cut(s)	314, 445
BseDI	CCNNGG	2 cut(s)	443, 444
BseMI	GCAATG	1 cut(s)	322
BseMII	CTCAG	2 cut(s)	227, 321
BseNI	ACTGG	1 cut(s)	393
BseXI	GCAGC	3 cut(s)	268, 396, 424
BsiHKAI	GWGCWC	1 cut(s)	336
BslFI	GGGAC	1 cut(s)	62
BsmAI	GTCTC	1 cut(s)	183
BsmFI	GGGAC	1 cut(s)	62
Bsp1286I	GDGCHC	1 cut(s)	336
Bsp143I	GATC	1 cut(s)	427
BspCNI	CTCAG	2 cut(s)	228, 322
BspMAI	CTGCAG	1 cut(s)	414
BsrDI	GCAATG	1 cut(s)	322
BsrI	ACTGG	1 cut(s)	393
BssECI	CCNNGG	2 cut(s)	443, 444
BssMI	GATC	1 cut(s)	427
Bst2UI	CCWGG	2 cut(s)	314, 445
Bst6I	CTCTTC	1 cut(s)	150
BstDEI	CTNAG	3 cut(s)	236, 292, 330
BstKTI	GATC	1 cut(s)	430
BstMAI	GTCTC	1 cut(s)	183
BstMBI	GATC	1 cut(s)	427
BstMWI	GCNNNNNNNGC	1 cut(s)	368
BstNI	CCWGG	2 cut(s)	314, 445
BstNSI	RCATGY	2 cut(s)	141, 322
BstSCI	CCNGG	2 cut(s)	312, 443
BstSFI	CTRYAG	2 cut(s)	251, 410
BstV1I	GCAGC	3 cut(s)	268, 396, 424
BtsI	GCAGTG	1 cut(s)	163
BtsIMutI	CAGTG	2 cut(s)	163, 400
Csp6I	GTAC	3 cut(s)	141, 240, 390
CviAII	CATG	4 cut(s)	127, 138, 211, 319
CviJI	RGCY	4 cut(s)	235, 301, 362, 433
CviKI_1	RGCY	4 cut(s)	235, 301, 362, 433
CviQI	GTAC	3 cut(s)	141, 240, 390
DdeI	CTNAG	3 cut(s)	236, 292, 330
DpnI	GATC	1 cut(s)	429
DpnII	GATC	1 cut(s)	427
DraI	TTTAAA	1 cut(s)	382
Eam1104I	CTCTTC	1 cut(s)	150
EarI	CTCTTC	1 cut(s)	150
Eco32I	GATATC	1 cut(s)	472
EcoRII	CCWGG	2 cut(s)	312, 443
EcoRV	GATATC	1 cut(s)	472
EcoT22I	ATGCAT	1 cut(s)	324
FaeI	CATG	4 cut(s)	130, 141, 214, 322
FaiI	YATR	7 cut(s)	30, 128, 139, 212, 305, 320, 476
FaqI	GGGAC	1 cut(s)	62
FatI	CATG	4 cut(s)	126, 137, 210, 318
FbaI	TGATCA	1 cut(s)	427
Fnu4HI	GCNGC	3 cut(s)	257, 410, 413
Fsp4HI	GCNGC	3 cut(s)	257, 410, 413
FspBI	CTAG	1 cut(s)	228
GluI	GCNGC	3 cut(s)	257, 410, 413
GsuI	CTGGAG	1 cut(s)	296
Hin1II	CATG	4 cut(s)	130, 141, 214, 322
HinfI	GANTC	2 cut(s)	101, 190
HphI	GGTGA	2 cut(s)	25, 100
Hpy188I	TCNGA	1 cut(s)	331
Hpy188III	TCNNGA	4 cut(s)	37, 74, 197, 421
HpyCH4V	TGCA	6 cut(s)	109, 168, 284, 322, 412, 482
HpyF10VI	GCNNNNNNNGC	1 cut(s)	368
HpyF3I	CTNAG	3 cut(s)	236, 292, 330
Hsp92II	CATG	4 cut(s)	130, 141, 214, 322
Ksp22I	TGATCA	1 cut(s)	427
Kzo9I	GATC	1 cut(s)	427
LpnPI	CCDG	7 cut(s)	22, 38, 299, 326, 406, 430, 457
Lsp1109I	GCAGC	3 cut(s)	268, 396, 424
MaeI	CTAG	1 cut(s)	228
MalI	GATC	1 cut(s)	429
MboI	GATC	1 cut(s)	427
MboII	GAAGA	3 cut(s)	28, 167, 461
MhlI	GDGCHC	1 cut(s)	336
MluCI	AATT	2 cut(s)	458, 490
MlyI	GAGTC	1 cut(s)	110
MnlI	CCTC	3 cut(s)	39, 70, 180
Mph1103I	ATGCAT	1 cut(s)	324
MroXI	GAANNNNTTC	2 cut(s)	159, 453
MseI	TTAA	1 cut(s)	381
MslI	CAYNNNNRTG	2 cut(s)	173, 198
MspA1I	CMGCKG	1 cut(s)	235
MspR9I	CCNGG	2 cut(s)	314, 445
MvaI	CCWGG	2 cut(s)	314, 445
MwoI	GCNNNNNNNGC	1 cut(s)	368
NdeII	GATC	1 cut(s)	427
NlaIII	CATG	4 cut(s)	130, 141, 214, 322
NsiI	ATGCAT	1 cut(s)	324
NspI	RCATGY	2 cut(s)	141, 322
PasI	CCCWGGG	1 cut(s)	444
PciI	ACATGT	1 cut(s)	137
PdmI	GAANNNNTTC	2 cut(s)	159, 453
PfeI	GAWTC	1 cut(s)	190
PfoI	TCCNGGA	1 cut(s)	312
PkrI	GCNGC	3 cut(s)	258, 411, 414
PleI	GAGTC	1 cut(s)	109
PpsI	GAGTC	1 cut(s)	109
PscI	ACATGT	1 cut(s)	137
Psp6I	CCWGG	2 cut(s)	312, 443
PspGI	CCWGG	2 cut(s)	312, 443
PstI	CTGCAG	1 cut(s)	414
PvuII	CAGCTG	1 cut(s)	235
RsaI	GTAC	3 cut(s)	142, 241, 391
RsaNI	GTAC	3 cut(s)	141, 240, 390
RseI	CAYNNNNRTG	2 cut(s)	173, 198
SaqAI	TTAA	1 cut(s)	381
SatI	GCNGC	3 cut(s)	257, 410, 413
Sau3AI	GATC	1 cut(s)	427
SchI	GAGTC	1 cut(s)	110
ScrFI	CCNGG	2 cut(s)	314, 445
SduI	GDGCHC	1 cut(s)	336
SetI	ASST	6 cut(s)	35, 81, 223, 237, 364, 380
SfcI	CTRYAG	2 cut(s)	251, 410
SmiMI	CAYNNNNRTG	2 cut(s)	173, 198
Sse9I	AATT	2 cut(s)	458, 490
SspMI	CTAG	1 cut(s)	228
StyD4I	CCNGG	2 cut(s)	312, 443
TasI	AATT	2 cut(s)	458, 490
TatI	WGTACW	2 cut(s)	140, 239
TfiI	GAWTC	1 cut(s)	190
Tru1I	TTAA	1 cut(s)	381
Tru9I	TTAA	1 cut(s)	381
TscAI	CASTG	2 cut(s)	170, 400
TseI	GCWGC	3 cut(s)	256, 409, 412
TspDTI	ATGAA	2 cut(s)	143, 182
TspRI	CASTG	2 cut(s)	170, 400
XceI	RCATGY	2 cut(s)	141, 322
XmnI	GAANNNNTTC	2 cut(s)	159, 453
XspI	CTAG	1 cut(s)	228
Zsp2I	ATGCAT	1 cut(s)	324

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