Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0003001

Physical Location & Seq

Genomic Coordinates Forward (+)

18049097 .. 18051492

Gene Structure 2396 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG166700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 354 bp

ATGCTTTATGAGCCAAGCTTTGCGCAAGAAATGCATCTAAAGCTGGATATTGGTGTGTATTATGGGAATCCAGAAGTGACATCTAGAGGAATTGCATTAAAGTTCTTTGCCTCAGTTCGCCTGGAAATACGTTCTACAGGGAAAATAAAATCTGTAAAAGGAGACGAGGAAATTGGGGTTCAGGTCCGTGTACGAGTGCAAAAGAGTAAGTCATCTAGGAGACAATGCTCTCAGGCGGAATTCAACTCAACTTTTCAGCTCAAAGATGGTTCTAGTGCACTTATAGTTCACAATAGTCTTCTAAGTACACCAGAAACTACCTTCTTGAAACTAACAAAAAGAAAAAGCACCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000150 GO:0000217 GO:0000400 GO:0000724 GO:0000725 GO:0000730 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003697 GO:0003824 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006310 GO:0006312 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008094 GO:0008150 GO:0008152 GO:0009314 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009628 GO:0009987 GO:0010212 GO:0016043 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0022607 GO:0033554 GO:0034622 GO:0034641 GO:0042148 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0045003 GO:0046483 GO:0050896 GO:0051716 GO:0065003 GO:0065004 GO:0071704 GO:0071824 GO:0071840 GO:0090304 GO:0090735 GO:0097159 GO:0140097 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko03440 map03440

Pfam Domains

Protein Families

RecA

Protein Analysis

117

Amino Acids

13.16

Weight (kDa)

9.88

Isoelectric Point (pI)

39.89

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RecA_N	PF00154	13 - 73	1.1e-14	RecA N-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0003001)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G79050 AT1G79050
fragaria_vesca	FvH4_1g27813
malus_domestica	MD09G1277400.v1.1 MD17G1270800.v1.1
prunus_persica	Prupe.3G015400_v2.0.a1 Prupe.3G015400_v2.0.a1 Prupe.3G015400_v2.0.a1 Prupe.3G015400_v2.0.a1
pyrus_communis	pycom09g18680 pycom17g26930
rosa_chinensis	RchiOBHm_Chr1g0376401 RchiOBHm_Chr3g0485071 RchiOBHm_Chr3g0485081 RchiOBHm_Chr3g0488901 RchiOBHm_Chr3g0488941 RchiOBHm_Chr3g0488951 RchiOBHm_Chr6g0270261
rosa_laevigata	RLG00000001730 RLG00000022906
rosa_multiflora	Rmu_sc0001208.1_g000006
rosa_roxburghii	Rroxscaffold_5G00371550 Rroxscaffold_6G00393780
rosa_rugosa	Rorug03G0242300
rosa_samantha	Rh2CG293500 Rh3AG266100 Rh3AG290500 Rh3BG327500 Rh3CG324800 Rh3DG323400 Rh3DG323700 Rh3DG329000 Rh5AG166700
rosa_wichuraiana	Rw1G015550 Rw1G026850 Rw3G025730 Rw5G015170 Rw7G021290

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	24
AciI	CCGC	1 cut(s)	236
AcsI	RAATTY	1 cut(s)	239
AfaI	GTAC	2 cut(s)	192, 307
AgsI	TTSAA	2 cut(s)	244, 328
AjnI	CCWGG	1 cut(s)	120
AluBI	AGCT	3 cut(s)	18, 43, 259
AluI	AGCT	3 cut(s)	18, 43, 259
Alw21I	GWGCWC	1 cut(s)	280
Alw26I	GTCTC	2 cut(s)	156, 214
Alw44I	GTGCAC	1 cut(s)	276
ApaLI	GTGCAC	1 cut(s)	276
ApoI	RAATTY	1 cut(s)	239
AspLEI	GCGC	1 cut(s)	25
AspS9I	GGNCC	1 cut(s)	184
AvaII	GGWCC	1 cut(s)	184
BaeGI	GKGCMC	1 cut(s)	280
BbsI	GAAGAC	1 cut(s)	290
Bbv12I	GWGCWC	1 cut(s)	280
BccI	CCATC	1 cut(s)	260
BciT130I	CCWGG	1 cut(s)	122
BcoDI	GTCTC	2 cut(s)	156, 214
BfaI	CTAG	3 cut(s)	84, 216, 273
BfmI	CTRYAG	1 cut(s)	135
Bme1390I	CCNGG	1 cut(s)	122
Bme18I	GGWCC	1 cut(s)	184
BmgT120I	GGNCC	1 cut(s)	184
BmrFI	CCNGG	1 cut(s)	122
BmsI	GCATC	1 cut(s)	43
BpiI	GAAGAC	1 cut(s)	290
BseBI	CCWGG	1 cut(s)	122
BseMII	CTCAG	2 cut(s)	126, 245
BseSI	GKGCMC	1 cut(s)	280
BsiHKAI	GWGCWC	1 cut(s)	280
BsmAI	GTCTC	2 cut(s)	156, 214
BsmBI	CGTCTC	1 cut(s)	156
Bsp1286I	GDGCHC	1 cut(s)	280
BspACI	CCGC	1 cut(s)	236
BspCNI	CTCAG	2 cut(s)	125, 244
Bst2UI	CCWGG	1 cut(s)	122
BstAPI	GCANNNNNTGC	1 cut(s)	31
BstDEI	CTNAG	3 cut(s)	112, 231, 302
BstHHI	GCGC	1 cut(s)	25
BstMAI	GTCTC	2 cut(s)	156, 214
BstMWI	GCNNNNNNNGC	3 cut(s)	10, 31, 40
BstNI	CCWGG	1 cut(s)	122
BstSCI	CCNGG	1 cut(s)	120
BstSFI	CTRYAG	1 cut(s)	135
BstSLI	GKGCMC	1 cut(s)	280
BstV2I	GAAGAC	1 cut(s)	290
CfoI	GCGC	1 cut(s)	25
Cfr13I	GGNCC	1 cut(s)	184
Csp6I	GTAC	2 cut(s)	191, 306
CviJI	RGCY	4 cut(s)	13, 18, 43, 259
CviKI_1	RGCY	4 cut(s)	13, 18, 43, 259
CviQI	GTAC	2 cut(s)	191, 306
DdeI	CTNAG	3 cut(s)	112, 231, 302
EciI	GGCGGA	1 cut(s)	251
Eco47I	GGWCC	1 cut(s)	184
EcoRI	GAATTC	1 cut(s)	239
EcoRII	CCWGG	1 cut(s)	120
EcoT22I	ATGCAT	1 cut(s)	36
Esp3I	CGTCTC	1 cut(s)	156
FaiI	YATR	3 cut(s)	9, 63, 284
FspBI	CTAG	3 cut(s)	84, 216, 273
FspI	TGCGCA	1 cut(s)	24
GlaI	GCGC	1 cut(s)	24
HhaI	GCGC	1 cut(s)	25
Hin6I	GCGC	1 cut(s)	23
HinP1I	GCGC	1 cut(s)	23
HindIII	AAGCTT	1 cut(s)	16
HinfI	GANTC	1 cut(s)	67
Hpy166II	GTNNAC	4 cut(s)	191, 278, 289, 308
Hpy188III	TCNNGA	3 cut(s)	71, 84, 325
Hpy8I	GTNNAC	4 cut(s)	191, 278, 289, 308
HpyAV	CCTTC	1 cut(s)	331
HpyCH4IV	ACGT	1 cut(s)	130
HpyCH4V	TGCA	4 cut(s)	34, 95, 199, 278
HpyF10VI	GCNNNNNNNGC	3 cut(s)	10, 31, 40
HpyF3I	CTNAG	3 cut(s)	112, 231, 302
HpySE526I	ACGT	1 cut(s)	130
HspAI	GCGC	1 cut(s)	23
LpnPI	CCDG	8 cut(s)	29, 84, 107, 123, 134, 167, 218, 324
LweI	GCATC	1 cut(s)	43
MaeI	CTAG	3 cut(s)	84, 216, 273
MaeII	ACGT	1 cut(s)	130
MaeIII	GTNAC	1 cut(s)	76
MboII	GAAGA	1 cut(s)	290
MhlI	GDGCHC	1 cut(s)	280
MluCI	AATT	3 cut(s)	90, 171, 239
MnlI	CCTC	3 cut(s)	80, 121, 160
Mph1103I	ATGCAT	1 cut(s)	36
MseI	TTAA	1 cut(s)	98
MspR9I	CCNGG	1 cut(s)	122
MvaI	CCWGG	1 cut(s)	122
MwoI	GCNNNNNNNGC	3 cut(s)	10, 31, 40
NmuCI	GTSAC	1 cut(s)	76
NsbI	TGCGCA	1 cut(s)	24
NsiI	ATGCAT	1 cut(s)	36
PfeI	GAWTC	1 cut(s)	67
Psp6I	CCWGG	1 cut(s)	120
PspGI	CCWGG	1 cut(s)	120
PspPI	GGNCC	1 cut(s)	184
RsaI	GTAC	2 cut(s)	192, 307
RsaNI	GTAC	2 cut(s)	191, 306
SaqAI	TTAA	1 cut(s)	98
Sau96I	GGNCC	1 cut(s)	184
ScrFI	CCNGG	1 cut(s)	122
SduI	GDGCHC	1 cut(s)	280
SetI	ASST	7 cut(s)	20, 45, 133, 186, 261, 323, 353
SfaNI	GCATC	1 cut(s)	43
SfcI	CTRYAG	1 cut(s)	135
SinI	GGWCC	1 cut(s)	184
Sse9I	AATT	3 cut(s)	90, 171, 239
SsiI	CCGC	1 cut(s)	236
SspMI	CTAG	3 cut(s)	84, 216, 273
StyD4I	CCNGG	1 cut(s)	120
TaiI	ACGT	1 cut(s)	133
TasI	AATT	3 cut(s)	90, 171, 239
TatI	WGTACW	1 cut(s)	305
TfiI	GAWTC	1 cut(s)	67
Tru1I	TTAA	1 cut(s)	98
Tru9I	TTAA	1 cut(s)	98
TseFI	GTSAC	1 cut(s)	76
Tsp45I	GTSAC	1 cut(s)	76
TspGWI	ACGGA	1 cut(s)	176
VneI	GTGCAC	1 cut(s)	276
VpaK11BI	GGWCC	1 cut(s)	184
XapI	RAATTY	1 cut(s)	239
XbaI	TCTAGA	1 cut(s)	83
XspI	CTAG	3 cut(s)	84, 216, 273
Zsp2I	ATGCAT	1 cut(s)	36

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