Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0000705

Physical Location & Seq

Genomic Coordinates Forward (+)

29761810 .. 29763917

Gene Structure 2108 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00024040.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 282 bp

ATGGAGAATTCTGAAAAGCCAATAAGAGGAAAAACATTCTCCCGTCCGGAAGACGACGCACTATGCAAGGCATCTCGTTATGTAAGTCAAGATTCTACTATTGGGACCGGGCAAACAAAGGTTGTATTTTGGCAACGAATTCATGCAAAATGGGAAAAATTGTATGTTGCAGAAACAGGGCTTGCCCCAAAGAGAAATCCAGAGCTTGATGCAGACTATGATTCAAAGATGCTGCTTCCTTTTCTTCGTAGTAGTCAACATTATACACTTGAGAAGGTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005768 GO:0005770 GO:0006605 GO:0006623 GO:0006810 GO:0006886 GO:0006996 GO:0007033 GO:0007034 GO:0008104 GO:0008150 GO:0009605 GO:0009606 GO:0009628 GO:0009629 GO:0009630 GO:0009987 GO:0012505 GO:0015031 GO:0015833 GO:0016020 GO:0016043 GO:0019899 GO:0030897 GO:0031338 GO:0031410 GO:0031982 GO:0032879 GO:0032991 GO:0033036 GO:0033043 GO:0033263 GO:0033365 GO:0034613 GO:0035542 GO:0042144 GO:0042886 GO:0043226 GO:0043227 GO:0043229 GO:0043254 GO:0044087 GO:0044422 GO:0044424 GO:0044425 GO:0044433 GO:0044440 GO:0044444 GO:0044446 GO:0044464 GO:0045184 GO:0046907 GO:0048284 GO:0050789 GO:0050794 GO:0050896 GO:0051020 GO:0051049 GO:0051128 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0060627 GO:0061024 GO:0061025 GO:0065007 GO:0070727 GO:0071702 GO:0071705 GO:0071840 GO:0072594 GO:0072665 GO:0072666 GO:0097576 GO:0097708 GO:0098796 GO:0099023

KEGG Pathways

Metabolic & Signaling

ko04138 map04138

Pfam Domains

Protein Families

Clathrin

Protein Analysis

93

Amino Acids

10.73

Weight (kDa)

8.73

Isoelectric Point (pI)

56.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TPR_Vps41	PF23556	68 - 92	8e-06	Vps41 TPR-like region

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)

Image

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Publication-ready

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Orthologous Genes (Group: OG0000705)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g23932 FvH4_3g35672 FvH4_4g18641 FvH4_7g17721
malus_domestica	MD03G1177400.v1.1 MD07G1181800.v1.1 MD08G1042000.v1.1 MD08G1109500.v1.1 MD10G1235600.v1.1 MD14G1015600.v1.1 MD17G1218600.v1.1
prunus_persica	Prupe.3G094000_v2.0.a1 Prupe.4G233800_v2.0.a1
pyrus_communis	pycom05g03000 pycom06g19840 pycom08g03390 pycom08g03420 pycom09g12380 pycom11g05900 pycom13g28390 pycom13g28400 pycom14g03000 pycom16g13550 pycom16g13560 pycom16g25710 pycom17g22320
rosa_chinensis	RchiOBHm_Chr2g0111501 RchiOBHm_Chr3g0494851 RchiOBHm_Chr4g0406761 RchiOBHm_Chr6g0260681 RchiOBHm_Chr6g0298551
rosa_laevigata	RLG00000002080 RLG00000002250 RLG00000002368 RLG00000012994 RLG00000017948 RLG00000022683
rosa_multiflora	Rmu_sc0000441.1_g000135 Rmu_sc0000610.1_g000022 Rmu_sc0000861.1_g000009 Rmu_sc0000938.1_g000012 Rmu_sc0001551.1_g000021 Rmu_sc0001685.1_g000059 Rmu_sc0002132.1_g000058 Rmu_sc0002539.1_g000108 Rmu_sc0002856.1_g000004 Rmu_sc0002868.1_g000022 Rmu_sc0003642.1_g000004 Rmu_sc0005394.1_g000003 Rmu_sc0005742.1_g000002 Rmu_sc0006138.1_g000008 Rmu_sc0006320.1_g000009 Rmu_sc0006616.1_g000006 Rmu_sc0007485.1_g000021 Rmu_sc0008518.1_g000027 Rmu_sc0010999.1_g000017 Rmu_sc0011648.1_g000001 Rmu_sc0013558.1_g000009 Rmu_sc0013665.1_g000001 Rmu_sc0014762.1_g000006 Rmu_ssc0000050.1_g000057
rosa_roxburghii	Rroxscaffold_1G00024040
rosa_samantha	Rh1CG033000 Rh1CG207600 Rh6CG418600
rosa_wichuraiana	Rw1G008980 Rw1G034040 Rw4G013350 Rw4G032310 Rw5G001190 Rw5G026320 Rw5G038830 Rw6G008970 Rw7G034950

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccIII	TCCGGA	1 cut(s)	46
AcsI	RAATTY	2 cut(s)	7, 138
AfiI	CCNNNNNNNGG	1 cut(s)	26
AgsI	TTSAA	1 cut(s)	225
AluBI	AGCT	1 cut(s)	205
AluI	AGCT	1 cut(s)	205
Aor13HI	TCCGGA	1 cut(s)	46
ApeKI	GCWGC	1 cut(s)	232
ApoI	RAATTY	2 cut(s)	7, 138
AspS9I	GGNCC	1 cut(s)	105
AsuC2I	CCSGG	1 cut(s)	109
AvaII	GGWCC	1 cut(s)	105
BbsI	GAAGAC	1 cut(s)	57
BbvI	GCAGC	1 cut(s)	219
BcnI	CCSGG	1 cut(s)	109
BisI	GCNGC	1 cut(s)	233
BlsI	GCNGC	1 cut(s)	234
Bme1390I	CCNGG	1 cut(s)	109
Bme18I	GGWCC	1 cut(s)	105
BmgT120I	GGNCC	1 cut(s)	105
BmiI	GGNNCC	1 cut(s)	106
BmrFI	CCNGG	1 cut(s)	109
BmsI	GCATC	3 cut(s)	80, 199, 219
BpiI	GAAGAC	1 cut(s)	57
BpuMI	CCSGG	1 cut(s)	109
BsaWI	WCCGGW	1 cut(s)	46
Bsc4I	CCNNNNNNNGG	1 cut(s)	26
BseAI	TCCGGA	1 cut(s)	46
BseLI	CCNNNNNNNGG	1 cut(s)	26
BseXI	GCAGC	1 cut(s)	219
BsiSI	CCGG	2 cut(s)	47, 108
BslFI	GGGAC	1 cut(s)	118
BslI	CCNNNNNNNGG	1 cut(s)	26
BsmFI	GGGAC	1 cut(s)	118
Bsp13I	TCCGGA	1 cut(s)	46
BspEI	TCCGGA	1 cut(s)	46
BspLI	GGNNCC	1 cut(s)	106
BstC8I	GCNNGC	1 cut(s)	183
BstSCI	CCNGG	1 cut(s)	107
BstV1I	GCAGC	1 cut(s)	219
BstV2I	GAAGAC	1 cut(s)	57
Cac8I	GCNNGC	1 cut(s)	183
Cfr13I	GGNCC	1 cut(s)	105
CseI	GACGC	1 cut(s)	65
CviAII	CATG	1 cut(s)	143
CviJI	RGCY	3 cut(s)	19, 181, 205
CviKI_1	RGCY	3 cut(s)	19, 181, 205
Eco47I	GGWCC	1 cut(s)	105
EcoRI	GAATTC	2 cut(s)	7, 138
FaeI	CATG	1 cut(s)	146
FaiI	YATR	6 cut(s)	64, 81, 144, 165, 219, 264
FaqI	GGGAC	1 cut(s)	118
FatI	CATG	1 cut(s)	142
Fnu4HI	GCNGC	1 cut(s)	233
Fsp4HI	GCNGC	1 cut(s)	233
GluI	GCNGC	1 cut(s)	233
HapII	CCGG	2 cut(s)	47, 108
HgaI	GACGC	1 cut(s)	65
Hin1II	CATG	1 cut(s)	146
HincII	GTYRAC	1 cut(s)	257
HindII	GTYRAC	1 cut(s)	257
HinfI	GANTC	2 cut(s)	92, 221
HpaII	CCGG	2 cut(s)	47, 108
Hpy166II	GTNNAC	1 cut(s)	257
Hpy188I	TCNGA	1 cut(s)	13
Hpy188III	TCNNGA	3 cut(s)	47, 89, 200
Hpy8I	GTNNAC	1 cut(s)	257
Hpy99I	CGWCG	1 cut(s)	59
HpyAV	CCTTC	1 cut(s)	268
HpyCH4V	TGCA	4 cut(s)	66, 146, 170, 212
Hsp92II	CATG	1 cut(s)	146
Kpn2I	TCCGGA	1 cut(s)	46
LpnPI	CCDG	4 cut(s)	60, 121, 162, 213
Lsp1109I	GCAGC	1 cut(s)	219
LweI	GCATC	3 cut(s)	80, 199, 219
MboII	GAAGA	2 cut(s)	62, 236
MluCI	AATT	3 cut(s)	7, 138, 158
MnlI	CCTC	1 cut(s)	20
MroI	TCCGGA	1 cut(s)	46
MspI	CCGG	2 cut(s)	47, 108
MspR9I	CCNGG	1 cut(s)	109
NciI	CCSGG	1 cut(s)	109
NlaIII	CATG	1 cut(s)	146
NlaIV	GGNNCC	1 cut(s)	106
PfeI	GAWTC	2 cut(s)	92, 221
PkrI	GCNGC	1 cut(s)	234
PspN4I	GGNNCC	1 cut(s)	106
PspPI	GGNCC	1 cut(s)	105
SatI	GCNGC	1 cut(s)	233
Sau96I	GGNCC	1 cut(s)	105
ScrFI	CCNGG	1 cut(s)	109
SetI	ASST	3 cut(s)	123, 207, 279
SfaNI	GCATC	3 cut(s)	80, 199, 219
SinI	GGWCC	1 cut(s)	105
SmlI	CTYRAG	1 cut(s)	269
SmoI	CTYRAG	1 cut(s)	269
Sse9I	AATT	3 cut(s)	7, 138, 158
StyD4I	CCNGG	1 cut(s)	107
TasI	AATT	3 cut(s)	7, 138, 158
TfiI	GAWTC	2 cut(s)	92, 221
TseI	GCWGC	1 cut(s)	232
TspDTI	ATGAA	1 cut(s)	131
VpaK11BI	GGWCC	1 cut(s)	105
XapI	RAATTY	2 cut(s)	7, 138

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