Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7C

Orthogroup ID

OG0008476

Physical Location & Seq

Genomic Coordinates Forward (+)

69122455 .. 69128430

Gene Structure 5976 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7CG512000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1092 bp

ATGACAAAGTTATTTACTCGTGTATTTGCTTCACTTCCAGATGATGTAAAACTTGACAACATACTACATGAGAAGATGGCTTTGGTTCAACAATTCATTCGACCAGAAAATTTGGATATTCAGGCCCCCTTTCAAAATGAAACATCATGGCTGCTTGCACAGAAAGAACTGCAAAAGATCAATATGTACAAGGCACCAAGGGACAAGCTTGTGTGTATCCTCAATTGTTGCAAGGTTATCAATAACTTGCTGCTCAATGCTTCTATTGCTTCAAATGAGAATCCTCCTGGAGCTGATGAATTTCTTCCTGTCTTAATTTATGTTACTTTGAAGGCAAACCCTCCGCAACTGCACTCAAATTTGTTGTATATACAAAGATACAGGCGACAATCTCGATTAGTAGCAGAAGCAGCCTATTTCTTCACTAACATGCTCTCTGTCGAATCCTTCATTTCAAATATCGATGCGAAAGCCCTGTCAATGGATGAAACTGAGTTTGAAAAGAACATGGAATCTGCTCGAGCAATTCTATCAGGACTCTCAACTGATTTGAACAGCCAGCCTAATCAAAGCGGCCAACCTGTGAATATAAACAAGGAGCCAACAGCACCGCCCAAATCGTCAAAAGTTCCATCACTTTCAGATTTGGAGGATAAGGGTGCAGCACTCCTTGTAAACGATAAGCAGGCAAGCCAGGTTTTCCGGCAGTATCCATACTTGTTTGCGCATGTTGGTGATCTAACAGTCAATGATGTAGAAGACCTTCTTAATAATTACAAACAGCTTGTTTTCAAGTATGTTTGTCTCTCCAAAGGATTAGGTGATTCTGCTCCATCTCTGAACTCTTCTCTTCCTCTAAAGAGTTCAGAAACACAGGATCACCAGCATGCTGAAACTGCAAAGCAACAGGACCATACTAGAGCTGCAGAGCCTAATGATGAGCCATCAAAGGATACTGATAGAAAGGATGATGGTTCAAATACAGATTCTCTTTTTGAAGTGGAAAGTTTAGAATCTAAATTGTCAGAGGATCAAACAGTAGCACCACAAGACAGTAAACATGAAGAGTCCTCTCAATCACAGCTCTCCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000278 GO:0000281 GO:0000910 GO:0000911 GO:0000919 GO:0003006 GO:0003674 GO:0005085 GO:0005088 GO:0005089 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0007049 GO:0007275 GO:0008150 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010154 GO:0016020 GO:0016043 GO:0017016 GO:0017048 GO:0019899 GO:0022402 GO:0022414 GO:0022607 GO:0022622 GO:0031267 GO:0032501 GO:0032502 GO:0032506 GO:0042546 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044085 GO:0044424 GO:0044444 GO:0044464 GO:0048316 GO:0048364 GO:0048528 GO:0048608 GO:0048731 GO:0048856 GO:0051020 GO:0051301 GO:0061458 GO:0061640 GO:0065007 GO:0065009 GO:0071554 GO:0071840 GO:0090696 GO:0098772 GO:0099402 GO:1902410 GO:1903047

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

VPS9

Protein Analysis

363

Amino Acids

40.6

Weight (kDa)

4.97

Isoelectric Point (pI)

49.01

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
VPS9	PF02204	51 - 155	4e-30	Vacuolar sorting protein 9 (VPS9) domain

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

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0008476)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G19770 AT3G19770 AT5G09320
fragaria_vesca	FvH4_5g38820 FvH4_5g38820
malus_domestica	MD00G1104300.v1.1 MD15G1358700.v1.1
prunus_persica	Prupe.1G506400_v2.0.a1 Prupe.1G506400_v2.0.a1
pyrus_communis	pycom08g14820 pycom15g32120
rosa_chinensis	RchiOBHm_Chr7g0240821
rosa_laevigata	RLG00000000622
rosa_multiflora	Rmu_sc0004821.1_g000014 Rmu_sc0010888.1_g000004
rosa_roxburghii	Rroxscaffold_3G00219600
rosa_rugosa	Rorug07G0339300 Rorug07G0339300
rosa_samantha	Rh7AG493500 Rh7BG465500 Rh7CG512000 Rh7DG478700
rosa_wichuraiana	Rw7G041760

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	726
AccB1I	GGYRCC	1 cut(s)	193
AciI	CCGC	3 cut(s)	344, 573, 611
AclWI	GGATC	2 cut(s)	885, 1038
AcoI	YGGCCR	1 cut(s)	574
AcsI	RAATTY	3 cut(s)	109, 299, 358
AfaI	GTAC	1 cut(s)	188
AfiI	CCNNNNNNNGG	1 cut(s)	481
AjnI	CCWGG	2 cut(s)	286, 693
AjuI	GAANNNNNNNTTGG	2 cut(s)	65, 97
AluBI	AGCT	5 cut(s)	208, 293, 784, 923, 1084
AluI	AGCT	5 cut(s)	208, 293, 784, 923, 1084
Alw26I	GTCTC	1 cut(s)	809
AlwI	GGATC	2 cut(s)	885, 1038
Ama87I	CYCGRG	1 cut(s)	519
AoxI	GGCC	2 cut(s)	123, 574
ApeKI	GCWGC	5 cut(s)	151, 250, 410, 662, 923
ApoI	RAATTY	3 cut(s)	109, 299, 358
ArsI	GACNNNNNNTTYG	2 cut(s)	461, 493
Asp700I	GAANNNNTTC	2 cut(s)	303, 762
AspLEI	GCGC	1 cut(s)	727
AspS9I	GGNCC	2 cut(s)	124, 910
AsuHPI	GGTGA	3 cut(s)	746, 833, 872
AvaI	CYCGRG	1 cut(s)	519
AvaII	GGWCC	1 cut(s)	910
BanI	GGYRCC	1 cut(s)	193
BarI	GAAGNNNNNNTAC	2 cut(s)	747, 779
BauI	CACGAG	1 cut(s)	18
BbsI	GAAGAC	1 cut(s)	765
BbvI	GCAGC	5 cut(s)	138, 237, 422, 674, 910
BccI	CCATC	5 cut(s)	70, 640, 841, 952, 965
BciT130I	CCWGG	2 cut(s)	288, 695
BciVI	GTATCC	3 cut(s)	227, 720, 946
BcoDI	GTCTC	1 cut(s)	809
BfaI	CTAG	2 cut(s)	918, 1090
BfmI	CTRYAG	1 cut(s)	924
BfuI	GTATCC	3 cut(s)	227, 720, 946
BisI	GCNGC	6 cut(s)	152, 251, 411, 574, 663, 924
BlsI	GCNGC	6 cut(s)	153, 252, 412, 575, 664, 925
Bme1390I	CCNGG	2 cut(s)	288, 695
Bme18I	GGWCC	1 cut(s)	910
BmeT110I	CYCGRG	1 cut(s)	519
BmgT120I	GGNCC	2 cut(s)	124, 910
BmiI	GGNNCC	3 cut(s)	126, 195, 600
BmrFI	CCNGG	2 cut(s)	288, 695
BmsI	GCATC	1 cut(s)	454
BpiI	GAAGAC	1 cut(s)	765
BpmI	CTGGAG	1 cut(s)	309
Bsa29I	ATCGAT	1 cut(s)	462
BsaJI	CCNNGG	1 cut(s)	197
Bsc4I	CCNNNNNNNGG	1 cut(s)	481
BseBI	CCWGG	2 cut(s)	288, 695
BseCI	ATCGAT	1 cut(s)	462
BseDI	CCNNGG	1 cut(s)	197
BseGI	GGATG	2 cut(s)	490, 973
BseLI	CCNNNNNNNGG	1 cut(s)	481
BseMII	CTCAG	1 cut(s)	483
BseXI	GCAGC	5 cut(s)	138, 237, 422, 674, 910
BsgI	GTGCAG	2 cut(s)	335, 681
BshFI	GGCC	2 cut(s)	125, 576
BshNI	GGYRCC	1 cut(s)	193
BshVI	ATCGAT	1 cut(s)	462
BsiHKCI	CYCGRG	1 cut(s)	519
BsiSI	CCGG	1 cut(s)	703
BslFI	GGGAC	1 cut(s)	215
BslI	CCNNNNNNNGG	1 cut(s)	481
BsmAI	GTCTC	1 cut(s)	809
BsmFI	GGGAC	1 cut(s)	215
BsnI	GGCC	2 cut(s)	125, 576
BsoBI	CYCGRG	1 cut(s)	519
Bsp1407I	TGTACA	1 cut(s)	186
Bsp143I	GATC	4 cut(s)	177, 736, 877, 1030
BspACI	CCGC	3 cut(s)	344, 573, 611
BspANI	GGCC	2 cut(s)	125, 576
BspCNI	CTCAG	1 cut(s)	484
BspDI	ATCGAT	1 cut(s)	462
BspLI	GGNNCC	3 cut(s)	126, 195, 600
BspMAI	CTGCAG	1 cut(s)	928
BspPI	GGATC	2 cut(s)	885, 1038
BspT107I	GGYRCC	1 cut(s)	193
BsrGI	TGTACA	1 cut(s)	186
BssECI	CCNNGG	1 cut(s)	197
BssMI	GATC	4 cut(s)	177, 736, 877, 1030
BssSI	CACGAG	1 cut(s)	18
BssT1I	CCWWGG	1 cut(s)	197
Bst2BI	CACGAG	1 cut(s)	18
Bst2UI	CCWGG	2 cut(s)	288, 695
Bst4CI	ACNGT	3 cut(s)	745, 1039, 1055
Bst6I	CTCTTC	3 cut(s)	850, 855, 1059
BstAUI	TGTACA	1 cut(s)	186
BstC8I	GCNNGC	5 cut(s)	156, 560, 687, 691, 888
BstDEI	CTNAG	1 cut(s)	492
BstF5I	GGATG	2 cut(s)	490, 973
BstHHI	GCGC	1 cut(s)	727
BstKTI	GATC	4 cut(s)	180, 739, 880, 1033
BstMAI	GTCTC	1 cut(s)	809
BstMBI	GATC	4 cut(s)	177, 736, 877, 1030
BstMWI	GCNNNNNNNGC	3 cut(s)	266, 410, 896
BstNI	CCWGG	2 cut(s)	288, 695
BstNSI	RCATGY	3 cut(s)	433, 731, 890
BstSCI	CCNGG	2 cut(s)	286, 693
BstSFI	CTRYAG	1 cut(s)	924
BstV1I	GCAGC	5 cut(s)	138, 237, 422, 674, 910
BstV2I	GAAGAC	1 cut(s)	765
Bsu15I	ATCGAT	1 cut(s)	462
BsuI	GTATCC	3 cut(s)	227, 720, 946
BsuRI	GGCC	2 cut(s)	125, 576
BsuTUI	ATCGAT	1 cut(s)	462
BtsCI	GGATG	2 cut(s)	490, 973
Cac8I	GCNNGC	5 cut(s)	156, 560, 687, 691, 888
CfoI	GCGC	1 cut(s)	727
Cfr13I	GGNCC	2 cut(s)	124, 910
ClaI	ATCGAT	1 cut(s)	462
Csp6I	GTAC	1 cut(s)	187
CviAII	CATG	7 cut(s)	68, 147, 430, 508, 728, 887, 1061
CviQI	GTAC	1 cut(s)	187
DdeI	CTNAG	1 cut(s)	492
DpnI	GATC	4 cut(s)	179, 738, 879, 1032
DpnII	GATC	4 cut(s)	177, 736, 877, 1030
EaeI	YGGCCR	1 cut(s)	574
Eam1104I	CTCTTC	3 cut(s)	850, 855, 1059
EarI	CTCTTC	3 cut(s)	850, 855, 1059
Eco130I	CCWWGG	1 cut(s)	197
Eco47I	GGWCC	1 cut(s)	910
Eco88I	CYCGRG	1 cut(s)	519
EcoO109I	RGGNCCY	1 cut(s)	124
EcoRII	CCWGG	2 cut(s)	286, 693
EcoT14I	CCWWGG	1 cut(s)	197
ErhI	CCWWGG	1 cut(s)	197
FaeI	CATG	7 cut(s)	71, 150, 433, 511, 731, 890, 1064
FalI	AAGNNNNNCTT	2 cut(s)	750, 782
FaqI	GGGAC	1 cut(s)	215
FatI	CATG	7 cut(s)	67, 146, 429, 507, 727, 886, 1060
Fnu4HI	GCNGC	6 cut(s)	152, 251, 411, 574, 663, 924
FokI	GGATG	2 cut(s)	497, 980
Fsp4HI	GCNGC	6 cut(s)	152, 251, 411, 574, 663, 924
FspBI	CTAG	2 cut(s)	918, 1090
FspI	TGCGCA	1 cut(s)	726
GlaI	GCGC	1 cut(s)	726
GluI	GCNGC	6 cut(s)	152, 251, 411, 574, 663, 924
GsuI	CTGGAG	1 cut(s)	309
HaeIII	GGCC	2 cut(s)	125, 576
HapII	CCGG	1 cut(s)	703
HhaI	GCGC	1 cut(s)	727
Hin1II	CATG	7 cut(s)	71, 150, 433, 511, 731, 890, 1064
Hin6I	GCGC	1 cut(s)	725
HinP1I	GCGC	1 cut(s)	725
HindIII	AAGCTT	1 cut(s)	206
HinfI	GANTC	8 cut(s)	280, 443, 512, 537, 824, 986, 1013, 1067
HpaII	CCGG	1 cut(s)	703
HphI	GGTGA	3 cut(s)	746, 833, 872
Hpy166II	GTNNAC	2 cut(s)	676, 1058
Hpy188I	TCNGA	4 cut(s)	643, 840, 868, 1027
Hpy188III	TCNNGA	3 cut(s)	38, 393, 534
Hpy8I	GTNNAC	2 cut(s)	676, 1058
HpyAV	CCTTC	3 cut(s)	325, 457, 773
HpyCH4III	ACNGT	3 cut(s)	745, 1039, 1055
HpyCH4V	TGCA	7 cut(s)	158, 172, 231, 352, 662, 899, 926
HpyF10VI	GCNNNNNNNGC	3 cut(s)	266, 410, 896
HpyF3I	CTNAG	1 cut(s)	492
Hsp92II	CATG	7 cut(s)	71, 150, 433, 511, 731, 890, 1064
HspAI	GCGC	1 cut(s)	725
Kzo9I	GATC	4 cut(s)	177, 736, 877, 1030
LmnI	GCTCC	3 cut(s)	290, 598, 835
Lsp1109I	GCAGC	5 cut(s)	138, 237, 422, 674, 910
LweI	GCATC	1 cut(s)	454
MaeI	CTAG	2 cut(s)	918, 1090
MaeIII	GTNAC	1 cut(s)	322
MalI	GATC	4 cut(s)	179, 738, 879, 1032
MboI	GATC	4 cut(s)	177, 736, 877, 1030
MboII	GAAGA	7 cut(s)	85, 296, 412, 770, 837, 842, 1076
MfeI	CAATTG	1 cut(s)	223
MluCI	AATT	9 cut(s)	92, 109, 223, 299, 315, 358, 525, 772, 1019
MlyI	GAGTC	2 cut(s)	531, 1076
MnlI	CCTC	7 cut(s)	230, 294, 351, 643, 864, 1021, 1081
MroXI	GAANNNNTTC	2 cut(s)	303, 762
MseI	TTAA	2 cut(s)	314, 768
MslI	CAYNNNNRTG	3 cut(s)	428, 732, 885
MspI	CCGG	1 cut(s)	703
MspR9I	CCNGG	2 cut(s)	288, 695
MunI	CAATTG	1 cut(s)	223
MvaI	CCWGG	2 cut(s)	288, 695
MwoI	GCNNNNNNNGC	3 cut(s)	266, 410, 896
NdeII	GATC	4 cut(s)	177, 736, 877, 1030
NlaIII	CATG	7 cut(s)	71, 150, 433, 511, 731, 890, 1064
NlaIV	GGNNCC	3 cut(s)	126, 195, 600
NsbI	TGCGCA	1 cut(s)	726
NspI	RCATGY	3 cut(s)	433, 731, 890
PaeI	GCATGC	1 cut(s)	890
PaeR7I	CTCGAG	1 cut(s)	519
PdmI	GAANNNNTTC	2 cut(s)	303, 762
PfeI	GAWTC	6 cut(s)	280, 443, 512, 824, 986, 1013
PfoI	TCCNGGA	1 cut(s)	286
PkrI	GCNGC	6 cut(s)	153, 252, 412, 575, 664, 925
PleI	GAGTC	2 cut(s)	531, 1075
PpsI	GAGTC	2 cut(s)	531, 1075
Psp6I	CCWGG	2 cut(s)	286, 693
PspGI	CCWGG	2 cut(s)	286, 693
PspN4I	GGNNCC	3 cut(s)	126, 195, 600
PspPI	GGNCC	2 cut(s)	124, 910
PspXI	VCTCGAGB	1 cut(s)	519
PstI	CTGCAG	1 cut(s)	928
RsaI	GTAC	1 cut(s)	188
RsaNI	GTAC	1 cut(s)	187
RseI	CAYNNNNRTG	3 cut(s)	428, 732, 885
SaqAI	TTAA	2 cut(s)	314, 768
SatI	GCNGC	6 cut(s)	152, 251, 411, 574, 663, 924
Sau3AI	GATC	4 cut(s)	177, 736, 877, 1030
Sau96I	GGNCC	2 cut(s)	124, 910
SchI	GAGTC	2 cut(s)	531, 1076
ScrFI	CCNGG	2 cut(s)	288, 695
SfaNI	GCATC	1 cut(s)	454
SfcI	CTRYAG	1 cut(s)	924
Sfr274I	CTCGAG	1 cut(s)	519
SinI	GGWCC	1 cut(s)	910
SlaI	CTCGAG	1 cut(s)	519
SmiMI	CAYNNNNRTG	3 cut(s)	428, 732, 885
SmlI	CTYRAG	1 cut(s)	519
SmoI	CTYRAG	1 cut(s)	519
SphI	GCATGC	1 cut(s)	890
Sse9I	AATT	9 cut(s)	92, 109, 223, 299, 315, 358, 525, 772, 1019
SsiI	CCGC	3 cut(s)	344, 573, 611
SspMI	CTAG	2 cut(s)	918, 1090
StyD4I	CCNGG	2 cut(s)	286, 693
StyI	CCWWGG	1 cut(s)	197
TaaI	ACNGT	3 cut(s)	745, 1039, 1055
TaqI	TCGA	5 cut(s)	100, 394, 441, 462, 520
TasI	AATT	9 cut(s)	92, 109, 223, 299, 315, 358, 525, 772, 1019
TatI	WGTACW	1 cut(s)	186
TauI	GCSGC	1 cut(s)	576
TfiI	GAWTC	6 cut(s)	280, 443, 512, 824, 986, 1013
Tru1I	TTAA	2 cut(s)	314, 768
Tru9I	TTAA	2 cut(s)	314, 768
TseI	GCWGC	5 cut(s)	151, 250, 410, 662, 923
TspDTI	ATGAA	6 cut(s)	85, 153, 312, 439, 501, 1077
VpaK11BI	GGWCC	1 cut(s)	910
XapI	RAATTY	3 cut(s)	109, 299, 358
XceI	RCATGY	3 cut(s)	433, 731, 890
XhoI	CTCGAG	1 cut(s)	519
XmnI	GAANNNNTTC	2 cut(s)	303, 762
XspI	CTAG	2 cut(s)	918, 1090

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