Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0000154

Physical Location & Seq

Genomic Coordinates Reverse (-)

41466863 .. 41469254

Gene Structure 2392 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00360870.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 546 bp

ATGAATAATGATGATGCAGAAGAAGAAGAAATTCTAGAAGAAGGGAGGACAAGAATGCAACTCGTGTGGATGCAAGATTATGTGAGCGGAGAAGGGCTATACGAAGAGGAAGAAACAAACAATGTTGTCATGTTTACTTCTGTCATCGATCCAGCCACATTTGAAGAAGCTTTCAAGAGTGCTAAGTGGAAGGCTGCAATGGATCAAGAGATTGAGGCAATTGAAAGGAATCATACTTGGGAGTTAACAACCTTGATTACTGGAGCAAAAACAATTGGGGTGAAGTGGATCTTTAAGACTAAGTTGAATGAAAATGGTGAAGTTGATAAATGTAAGGCCGGACTTGTGGCAAAAGGGTATGCACAGCAATATGGGATTGACTACACCGAAGTTTTTGCACCGGTGGCTAGATGGGACACCATTAGAATGGTAATTGCTCTTGCTGCTCAAAAAGGTTGGAAGGTATATCAACTAGATGTCAAGAGTGCATTTTTACATGGGGAGCTTACGAGGCAATCTTCATTGATCAACCGCAAGGCTATGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009451 GO:0009507 GO:0009536 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010154 GO:0016070 GO:0016787 GO:0016788 GO:0022414 GO:0032501 GO:0032502 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0061458 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_1 PPR_2 PPR_3

Protein Analysis

181

Amino Acids

20.7

Weight (kDa)

4.86

Isoelectric Point (pI)

36.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_2	PF07727	77 - 171	1.2e-28	Reverse transcriptase (RNA-dependent DNA polymerase)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000154)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g02351 FvH4_1g18383 FvH4_1g18442 FvH4_1g19622 FvH4_2g08148 FvH4_2g16312 FvH4_3g06912 FvH4_3g10761 FvH4_3g12332 FvH4_3g12332 FvH4_3g14182 FvH4_3g21021 FvH4_3g35231 FvH4_3g45132 FvH4_4g08663 FvH4_4g30271 FvH4_4g30272 FvH4_4g30901 FvH4_4g30902 FvH4_5g12471 FvH4_5g22951 FvH4_6g07331 FvH4_6g07332 FvH4_6g41872 FvH4_6g43841 FvH4_6g43842 FvH4_6g48811 FvH4_7g03911 FvH4_7g13272 FvH4_7g21181 FvH4_7g29024 FvH4_7g33702
malus_domestica	MD00G1037700.v1.1 MD01G1037300.v1.1 MD01G1096700.v1.1 MD01G1101100.v1.1 MD01G1129400.v1.1 MD02G1295200.v1.1 MD03G1131300.v1.1 MD04G1072100.v1.1 MD05G1104800.v1.1 MD07G1028600.v1.1 MD07G1274600.v1.1 MD08G1027200.v1.1 MD09G1044400.v1.1 MD09G1044700.v1.1 MD09G1129500.v1.1 MD09G1238700.v1.1 MD10G1011700.v1.1 MD10G1071400.v1.1 MD10G1108600.v1.1 MD10G1162100.v1.1 MD10G1162300.v1.1 MD11G1016700.v1.1 MD11G1074500.v1.1 MD15G1058600.v1.1 MD15G1383000.v1.1 MD16G1192200.v1.1 MD17G1077400.v1.1 MD17G1077500.v1.1
pyrus_communis	pycom01g03520 pycom02g00350 pycom03g09910 pycom03g13960 pycom03g13970 pycom03g19180 pycom04g08410 pycom04g10140 pycom06g03750 pycom07g09240 pycom07g09260 pycom08g20130 pycom09g11020 pycom10g12690 pycom14g04140 pycom14g05710 pycom16g06380 pycom17g05500 pycom808g00140
rosa_chinensis	RchiOBHm_Chr1g0316211 RchiOBHm_Chr1g0319901 RchiOBHm_Chr1g0321811 RchiOBHm_Chr1g0329831 RchiOBHm_Chr1g0330721 RchiOBHm_Chr1g0330731 RchiOBHm_Chr1g0368461 RchiOBHm_Chr1g0381111 RchiOBHm_Chr2g0154461 RchiOBHm_Chr2g0164521 RchiOBHm_Chr2g0175301 RchiOBHm_Chr3g0451301 RchiOBHm_Chr3g0453691 RchiOBHm_Chr3g0470191 RchiOBHm_Chr3g0486561 RchiOBHm_Chr4g0409141 RchiOBHm_Chr4g0409151 RchiOBHm_Chr4g0421231 RchiOBHm_Chr4g0440701 RchiOBHm_Chr5g0018211 RchiOBHm_Chr5g0023611 RchiOBHm_Chr5g0045971 RchiOBHm_Chr5g0056061 RchiOBHm_Chr5g0063381 RchiOBHm_Chr5g0064011 RchiOBHm_Chr5g0064021 RchiOBHm_Chr5g0064041 RchiOBHm_Chr6g0259681 RchiOBHm_Chr6g0259691 RchiOBHm_Chr6g0296531 RchiOBHm_Chr7g0186421 RchiOBHm_Chr7g0192321 RchiOBHm_Chr7g0198271 RchiOBHm_Chr7g0198951 RchiOBHm_Chr7g0237911
rosa_laevigata	RLG00000026946
rosa_roxburghii	Rroxscaffold_1G00014460 Rroxscaffold_1G00014610 Rroxscaffold_1G00028950 Rroxscaffold_1G00052630 Rroxscaffold_2G00104760 Rroxscaffold_2G00138900 Rroxscaffold_2G00145210 Rroxscaffold_3G00220110 Rroxscaffold_4G00297860 Rroxscaffold_4G00321570 Rroxscaffold_5G00332990 Rroxscaffold_5G00360870
rosa_samantha	Rh1AG319600 Rh1CG299100 Rh4DG385900 Rh5BG032200
rosa_wichuraiana	Rw0G002380 Rw0G003050 Rw0G003940 Rw1G002730 Rw1G003260 Rw1G005490 Rw1G016140 Rw1G016150 Rw1G017930 Rw1G017940 Rw1G022540 Rw1G022630 Rw1G031080 Rw1G039680 Rw2G003340 Rw2G003720 Rw2G006640 Rw2G020790 Rw2G025650 Rw2G028430 Rw2G029550 Rw2G034920 Rw2G040820 Rw2G048420 Rw2G048570 Rw3G010040 Rw3G022790 Rw3G023350 Rw3G025140 Rw3G028810 Rw4G000680 Rw4G003350 Rw4G004640 Rw4G026650 Rw4G034500 Rw5G008490 Rw5G020650 Rw5G023000 Rw5G033610 Rw5G037280 Rw5G046620 Rw5G050250 Rw6G001410 Rw6G005690 Rw6G005820 Rw6G010920 Rw6G022790 Rw6G023940 Rw6G026290 Rw6G028610 Rw6G031260 Rw6G036550 Rw6G036560 Rw7G015300 Rw7G017250 Rw7G018150 Rw7G031960 Rw7G036490

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	87
AciI	CCGC	2 cut(s)	87, 532
AclWI	GGATC	3 cut(s)	143, 210, 296
AcsI	RAATTY	1 cut(s)	30
AgeI	ACCGGT	1 cut(s)	400
AgsI	TTSAA	4 cut(s)	164, 175, 224, 307
AluBI	AGCT	2 cut(s)	170, 505
AluI	AGCT	2 cut(s)	170, 505
AlwI	GGATC	3 cut(s)	143, 210, 296
AoxI	GGCC	1 cut(s)	336
ApeKI	GCWGC	2 cut(s)	194, 443
ApoI	RAATTY	1 cut(s)	30
AsiGI	ACCGGT	1 cut(s)	400
Asp700I	GAANNNNTTC	1 cut(s)	30
AsuHPI	GGTGA	2 cut(s)	292, 329
BauI	CACGAG	1 cut(s)	62
BbvI	GCAGC	2 cut(s)	181, 430
BccI	CCATC	1 cut(s)	405
BcgI	CGANNNNNNTGC	2 cut(s)	377, 411
BclI	TGATCA	1 cut(s)	525
BfaI	CTAG	3 cut(s)	35, 408, 473
BisI	GCNGC	2 cut(s)	195, 444
BlsI	GCNGC	2 cut(s)	196, 445
BmsI	GCATC	2 cut(s)	4, 60
BpmI	CTGGAG	1 cut(s)	282
Bsa29I	ATCGAT	1 cut(s)	147
BsaWI	WCCGGW	1 cut(s)	400
Bse118I	RCCGGY	1 cut(s)	400
Bse1I	ACTGG	1 cut(s)	265
Bse3DI	GCAATG	1 cut(s)	204
BseCI	ATCGAT	1 cut(s)	147
BseGI	GGATG	1 cut(s)	75
BseMI	GCAATG	1 cut(s)	204
BseNI	ACTGG	1 cut(s)	265
BseXI	GCAGC	2 cut(s)	181, 430
BshFI	GGCC	1 cut(s)	338
BshTI	ACCGGT	1 cut(s)	400
BshVI	ATCGAT	1 cut(s)	147
BsiSI	CCGG	2 cut(s)	339, 401
BslFI	GGGAC	1 cut(s)	428
BsmFI	GGGAC	1 cut(s)	428
BsmI	GAATGC	1 cut(s)	60
BsnI	GGCC	1 cut(s)	338
Bsp143I	GATC	4 cut(s)	148, 202, 288, 525
BspACI	CCGC	2 cut(s)	87, 532
BspANI	GGCC	1 cut(s)	338
BspDI	ATCGAT	1 cut(s)	147
BspPI	GGATC	3 cut(s)	143, 210, 296
BsrBI	CCGCTC	1 cut(s)	87
BsrDI	GCAATG	1 cut(s)	204
BsrFI	RCCGGY	1 cut(s)	400
BsrI	ACTGG	1 cut(s)	265
BssAI	RCCGGY	1 cut(s)	400
BssMI	GATC	4 cut(s)	148, 202, 288, 525
BssSI	CACGAG	1 cut(s)	62
Bst2BI	CACGAG	1 cut(s)	62
Bst6I	CTCTTC	1 cut(s)	99
BstDEI	CTNAG	2 cut(s)	183, 300
BstF5I	GGATG	1 cut(s)	75
BstKTI	GATC	4 cut(s)	151, 205, 291, 528
BstMBI	GATC	4 cut(s)	148, 202, 288, 525
BstMWI	GCNNNNNNNGC	3 cut(s)	404, 443, 511
BstV1I	GCAGC	2 cut(s)	181, 430
BstX2I	RGATCY	1 cut(s)	288
BstXI	CCANNNNNNTGG	1 cut(s)	427
BstYI	RGATCY	1 cut(s)	288
Bsu15I	ATCGAT	1 cut(s)	147
BsuRI	GGCC	1 cut(s)	338
BsuTUI	ATCGAT	1 cut(s)	147
BtsCI	GGATG	1 cut(s)	75
Cfr10I	RCCGGY	1 cut(s)	400
ClaI	ATCGAT	1 cut(s)	147
CspAI	ACCGGT	1 cut(s)	400
CspCI	CAANNNNNGTGG	2 cut(s)	47, 82
CviAII	CATG	2 cut(s)	130, 497
CviJI	RGCY	8 cut(s)	97, 155, 170, 194, 338, 407, 505, 539
CviKI_1	RGCY	8 cut(s)	97, 155, 170, 194, 338, 407, 505, 539
DdeI	CTNAG	2 cut(s)	183, 300
DpnI	GATC	4 cut(s)	150, 204, 290, 527
DpnII	GATC	4 cut(s)	148, 202, 288, 525
Eam1104I	CTCTTC	1 cut(s)	99
EarI	CTCTTC	1 cut(s)	99
FaeI	CATG	2 cut(s)	133, 500
FaiI	YATR	9 cut(s)	81, 100, 131, 234, 360, 372, 466, 498, 542
FalI	AAGNNNNNCTT	2 cut(s)	275, 307
FaqI	GGGAC	1 cut(s)	428
FatI	CATG	2 cut(s)	129, 496
FbaI	TGATCA	1 cut(s)	525
Fnu4HI	GCNGC	2 cut(s)	195, 444
FokI	GGATG	1 cut(s)	82
Fsp4HI	GCNGC	2 cut(s)	195, 444
FspBI	CTAG	3 cut(s)	35, 408, 473
GluI	GCNGC	2 cut(s)	195, 444
GsuI	CTGGAG	1 cut(s)	282
HaeIII	GGCC	1 cut(s)	338
HapII	CCGG	2 cut(s)	339, 401
Hin1II	CATG	2 cut(s)	133, 500
HincII	GTYRAC	1 cut(s)	246
HindII	GTYRAC	1 cut(s)	246
HindIII	AAGCTT	1 cut(s)	168
HinfI	GANTC	1 cut(s)	229
HpaI	GTTAAC	1 cut(s)	246
HpaII	CCGG	2 cut(s)	339, 401
HphI	GGTGA	2 cut(s)	292, 329
Hpy166II	GTNNAC	2 cut(s)	135, 246
Hpy188III	TCNNGA	4 cut(s)	35, 175, 206, 481
Hpy8I	GTNNAC	2 cut(s)	135, 246
HpyAV	CCTTC	4 cut(s)	35, 86, 184, 454
HpyCH4V	TGCA	7 cut(s)	17, 58, 73, 197, 362, 398, 488
HpyF10VI	GCNNNNNNNGC	3 cut(s)	404, 443, 511
HpyF3I	CTNAG	2 cut(s)	183, 300
Hsp92II	CATG	2 cut(s)	133, 500
Ksp22I	TGATCA	1 cut(s)	525
KspAI	GTTAAC	1 cut(s)	246
Kzo9I	GATC	4 cut(s)	148, 202, 288, 525
LmnI	GCTCC	2 cut(s)	263, 502
LpnPI	CCDG	4 cut(s)	165, 246, 352, 414
Lsp1109I	GCAGC	2 cut(s)	181, 430
LweI	GCATC	2 cut(s)	4, 60
MaeI	CTAG	3 cut(s)	35, 408, 473
MalI	GATC	4 cut(s)	150, 204, 290, 527
MbiI	CCGCTC	1 cut(s)	87
MboI	GATC	4 cut(s)	148, 202, 288, 525
MboII	GAAGA	8 cut(s)	32, 35, 38, 50, 116, 122, 176, 510
MfeI	CAATTG	2 cut(s)	219, 273
MflI	RGATCY	1 cut(s)	288
MluCI	AATT	4 cut(s)	30, 219, 273, 432
MmeI	TCCRAC	1 cut(s)	437
MnlI	CCTC	4 cut(s)	39, 100, 208, 504
MroXI	GAANNNNTTC	1 cut(s)	30
MseI	TTAA	2 cut(s)	245, 294
MslI	CAYNNNNRTG	1 cut(s)	425
MspI	CCGG	2 cut(s)	339, 401
MunI	CAATTG	2 cut(s)	219, 273
Mva1269I	GAATGC	1 cut(s)	60
MwoI	GCNNNNNNNGC	3 cut(s)	404, 443, 511
NdeII	GATC	4 cut(s)	148, 202, 288, 525
NlaIII	CATG	2 cut(s)	133, 500
PctI	GAATGC	1 cut(s)	60
PdmI	GAANNNNTTC	1 cut(s)	30
PfeI	GAWTC	1 cut(s)	229
PinAI	ACCGGT	1 cut(s)	400
PkrI	GCNGC	2 cut(s)	196, 445
PsuI	RGATCY	1 cut(s)	288
RseI	CAYNNNNRTG	1 cut(s)	425
SaqAI	TTAA	2 cut(s)	245, 294
SatI	GCNGC	2 cut(s)	195, 444
Sau3AI	GATC	4 cut(s)	148, 202, 288, 525
SetI	ASST	5 cut(s)	172, 254, 457, 465, 507
SfaNI	GCATC	2 cut(s)	4, 60
SgrAI	CRCCGGYG	1 cut(s)	400
SmiMI	CAYNNNNRTG	1 cut(s)	425
Sse9I	AATT	4 cut(s)	30, 219, 273, 432
SsiI	CCGC	2 cut(s)	87, 532
SspMI	CTAG	3 cut(s)	35, 408, 473
TaqI	TCGA	1 cut(s)	147
TasI	AATT	4 cut(s)	30, 219, 273, 432
TfiI	GAWTC	1 cut(s)	229
Tru1I	TTAA	2 cut(s)	245, 294
Tru9I	TTAA	2 cut(s)	245, 294
TseI	GCWGC	2 cut(s)	194, 443
TspDTI	ATGAA	3 cut(s)	17, 324, 510
XapI	RAATTY	1 cut(s)	30
XbaI	TCTAGA	1 cut(s)	34
XmnI	GAANNNNTTC	1 cut(s)	30
XspI	CTAG	3 cut(s)	35, 408, 473

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