Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0012777

Physical Location & Seq

Genomic Coordinates Forward (+)

3930674 .. 3931360

Gene Structure 687 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG058200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 687 bp

ATGGCTGCCCAAGGAGCTCGTGACCAAACTCCCATTGGCCACATAGAGATTCCAGTTTCATTTCCATTAGCTACAGACCAAAACAGACTACCCCAAGTGCCTGAAGAAGATGACAGTTTTGACTACTCTGAAAGAACACAATGGATTCGGGCAGCTGTTTTGGGAGCTAATGATGGTTTGGTCTCTGTTGCATCACTAATGATGGGTGTTGGAGCTGTCAAACAAGACGTGAAGGTGATGCTCCTGGCCGGGTTTGCTGGGCTAGTAGCAGGGGCATGCAGCATGGCAATAGGGGAATTTGTCTCTGTGTACACTCAATATGACATAGAGATATCCCAAATGAAAAGAGAGATGATGAAAGGGAATGGTGGTAACGAGAATGCGGAAGAAGCAAAGAAGAAGCTGCCAAACCCGGCACAGGCTGCCATAGCATCCGCGATTGCGTTTTCTATAGGTGCAGTGGTGCCTTTGTTGGGAACTGCATTTATAGGAGAGCATAAGGTGAGGATGCTGGTGGTGGCTCTTTTGGCAAGTATTGCACTAGTAGTGTTCGGAGGGATCGGAGCAAGGTTGGGGAGGACACCCATGATCAAGTCTTGTGTTAGAGTACTCATTGGAGGATGGATGGCTATGGCTATCACCTTTGGACTCACGAAGTTGATTGGCTCTGCGGGTCTAGAAATGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000041 GO:0000302 GO:0003674 GO:0005215 GO:0005381 GO:0005384 GO:0005575 GO:0006810 GO:0006811 GO:0006812 GO:0006826 GO:0006828 GO:0006873 GO:0006875 GO:0006879 GO:0006880 GO:0006950 GO:0006979 GO:0008150 GO:0008324 GO:0009719 GO:0009723 GO:0009725 GO:0009987 GO:0010033 GO:0010035 GO:0010038 GO:0010039 GO:0015075 GO:0015318 GO:0016020 GO:0019725 GO:0022857 GO:0022890 GO:0030001 GO:0030003 GO:0030026 GO:0032870 GO:0033554 GO:0034220 GO:0034599 GO:0034614 GO:0034755 GO:0035690 GO:0042221 GO:0042493 GO:0042592 GO:0046873 GO:0046915 GO:0046916 GO:0048878 GO:0050801 GO:0050896 GO:0051179 GO:0051234 GO:0051235 GO:0051238 GO:0051641 GO:0051651 GO:0051716 GO:0055065 GO:0055071 GO:0055072 GO:0055076 GO:0055080 GO:0055082 GO:0055085 GO:0065007 GO:0065008 GO:0070887 GO:0071241 GO:0071248 GO:0071281 GO:0071310 GO:0071369 GO:0071421 GO:0071495 GO:0071731 GO:0071732 GO:0097366 GO:0097577 GO:0098655 GO:0098660 GO:0098662 GO:0098771 GO:1901698 GO:1901699 GO:1901700 GO:1901701 GO:1902170

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

VIT1

Protein Analysis

228

Amino Acids

23.95

Weight (kDa)

6.14

Isoelectric Point (pI)

34.96

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
VIT1	PF01988	49 - 118	2.7e-23	VIT family
VIT1	PF01988	132 - 218	2.8e-17	VIT family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

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Publication-ready

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Orthologous Genes (Group: OG0012777)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G25190
fragaria_vesca	FvH4_6g05360 FvH4_6g06150
malus_domestica	MD04G1208900.v1.1 MD12G1223300.v1.1 MD12G1223400.v1.1
prunus_persica	Prupe.6G329900_v2.0.a1
rosa_chinensis	RchiOBHm_Chr3g0454131
rosa_laevigata	RLG00000025480
rosa_multiflora	Rmu_co8428255.1_g000001 Rmu_sc0018584.1_g000003
rosa_roxburghii	Rroxscaffold_165G00436910
rosa_rugosa	Rorug02G0653500
rosa_samantha	Rh3AG056300 Rh3BG057700 Rh3CG057000 Rh3DG058200
rosa_wichuraiana	Rw3G004310

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	463
AccII	CGCG	1 cut(s)	437
AciI	CCGC	3 cut(s)	383, 435, 671
AclWI	GGATC	1 cut(s)	566
AcoI	YGGCCR	2 cut(s)	37, 246
AcsI	RAATTY	1 cut(s)	296
AcuI	CTGAAG	1 cut(s)	123
AfaI	GTAC	2 cut(s)	311, 609
AfiI	CCNNNNNNNGG	2 cut(s)	418, 473
AhlI	ACTAGT	1 cut(s)	541
AjiI	CACGTC	1 cut(s)	229
AjnI	CCWGG	1 cut(s)	243
AluBI	AGCT	6 cut(s)	17, 71, 155, 167, 215, 403
AluI	AGCT	6 cut(s)	17, 71, 155, 167, 215, 403
Alw21I	GWGCWC	1 cut(s)	19
Alw26I	GTCTC	2 cut(s)	187, 307
AlwI	GGATC	1 cut(s)	566
AoxI	GGCC	2 cut(s)	37, 246
ApeKI	GCWGC	5 cut(s)	5, 152, 279, 403, 422
ApoI	RAATTY	1 cut(s)	296
AsuC2I	CCSGG	2 cut(s)	250, 413
AsuHPI	GGTGA	3 cut(s)	247, 514, 631
BalI	TGGCCA	1 cut(s)	39
BanI	GGYRCC	1 cut(s)	463
BanII	GRGCYC	1 cut(s)	19
BauI	CACGAG	1 cut(s)	18
Bbv12I	GWGCWC	1 cut(s)	19
BbvI	GCAGC	4 cut(s)	164, 291, 390, 409
BccI	CCATC	4 cut(s)	167, 196, 615, 619
BciT130I	CCWGG	1 cut(s)	245
BclI	TGATCA	1 cut(s)	588
BcnI	CCSGG	2 cut(s)	250, 413
BcoDI	GTCTC	2 cut(s)	187, 307
BcuI	ACTAGT	1 cut(s)	541
BfaI	CTAG	3 cut(s)	263, 542, 677
BfmI	CTRYAG	2 cut(s)	72, 450
BisI	GCNGC	5 cut(s)	6, 153, 280, 404, 423
BlsI	GCNGC	5 cut(s)	7, 154, 281, 405, 424
BmcAI	AGTACT	1 cut(s)	609
Bme1390I	CCNGG	3 cut(s)	245, 250, 413
BmgBI	CACGTC	1 cut(s)	229
BmiI	GGNNCC	1 cut(s)	465
BmrFI	CCNGG	3 cut(s)	245, 250, 413
BmsI	GCATC	4 cut(s)	200, 228, 440, 498
BpuMI	CCSGG	2 cut(s)	250, 413
BsaI	GGTCTC	1 cut(s)	187
BsaJI	CCNNGG	1 cut(s)	10
Bsc4I	CCNNNNNNNGG	2 cut(s)	418, 473
Bse1I	ACTGG	1 cut(s)	53
BseBI	CCWGG	1 cut(s)	245
BseDI	CCNNGG	1 cut(s)	10
BseGI	GGATG	4 cut(s)	431, 513, 626, 630
BseLI	CCNNNNNNNGG	2 cut(s)	418, 473
BseNI	ACTGG	1 cut(s)	53
BseXI	GCAGC	4 cut(s)	164, 291, 390, 409
BseYI	CCCAGC	1 cut(s)	257
BsgI	GTGCAG	1 cut(s)	477
Bsh1236I	CGCG	1 cut(s)	437
BshFI	GGCC	2 cut(s)	39, 248
BshNI	GGYRCC	1 cut(s)	463
BsiHKAI	GWGCWC	1 cut(s)	19
BsiSI	CCGG	2 cut(s)	249, 413
BslI	CCNNNNNNNGG	2 cut(s)	418, 473
BsmAI	GTCTC	2 cut(s)	187, 307
BsmI	GAATGC	1 cut(s)	385
BsnI	GGCC	2 cut(s)	39, 248
Bso31I	GGTCTC	1 cut(s)	187
Bsp1286I	GDGCHC	1 cut(s)	19
Bsp1407I	TGTACA	1 cut(s)	309
Bsp143I	GATC	2 cut(s)	558, 588
BspACI	CCGC	3 cut(s)	383, 435, 671
BspANI	GGCC	2 cut(s)	39, 248
BspFNI	CGCG	1 cut(s)	437
BspLI	GGNNCC	1 cut(s)	465
BspPI	GGATC	1 cut(s)	566
BspT107I	GGYRCC	1 cut(s)	463
BspTNI	GGTCTC	1 cut(s)	187
BsrGI	TGTACA	1 cut(s)	309
BsrI	ACTGG	1 cut(s)	53
BssECI	CCNNGG	1 cut(s)	10
BssMI	GATC	2 cut(s)	558, 588
BssSI	CACGAG	1 cut(s)	18
BssT1I	CCWWGG	1 cut(s)	10
Bst2BI	CACGAG	1 cut(s)	18
Bst2UI	CCWGG	1 cut(s)	245
Bst4CI	ACNGT	1 cut(s)	116
BstAPI	GCANNNNNTGC	2 cut(s)	422, 536
BstAUI	TGTACA	1 cut(s)	309
BstC8I	GCNNGC	1 cut(s)	277
BstF5I	GGATG	4 cut(s)	431, 513, 626, 630
BstFNI	CGCG	1 cut(s)	437
BstKTI	GATC	2 cut(s)	561, 591
BstMAI	GTCTC	2 cut(s)	187, 307
BstMBI	GATC	2 cut(s)	558, 588
BstMWI	GCNNNNNNNGC	7 cut(s)	14, 254, 389, 422, 428, 527, 536
BstNI	CCWGG	1 cut(s)	245
BstNSI	RCATGY	1 cut(s)	279
BstSCI	CCNGG	3 cut(s)	243, 248, 411
BstSFI	CTRYAG	2 cut(s)	72, 450
BstUI	CGCG	1 cut(s)	437
BstV1I	GCAGC	4 cut(s)	164, 291, 390, 409
BsuRI	GGCC	2 cut(s)	39, 248
BtrI	CACGTC	1 cut(s)	229
BtsCI	GGATG	4 cut(s)	431, 513, 626, 630
BtsI	GCAGTG	1 cut(s)	465
BtsIMutI	CAGTG	1 cut(s)	465
Cac8I	GCNNGC	1 cut(s)	277
Csp6I	GTAC	2 cut(s)	310, 608
CviAII	CATG	3 cut(s)	276, 283, 586
CviQI	GTAC	2 cut(s)	310, 608
DpnI	GATC	2 cut(s)	560, 590
DpnII	GATC	2 cut(s)	558, 588
EaeI	YGGCCR	2 cut(s)	37, 246
Ecl136II	GAGCTC	1 cut(s)	17
Eco130I	CCWWGG	1 cut(s)	10
Eco24I	GRGCYC	1 cut(s)	19
Eco31I	GGTCTC	1 cut(s)	187
Eco32I	GATATC	1 cut(s)	333
Eco53kI	GAGCTC	1 cut(s)	17
Eco57I	CTGAAG	1 cut(s)	123
EcoICRI	GAGCTC	1 cut(s)	17
EcoRII	CCWGG	1 cut(s)	243
EcoRV	GATATC	1 cut(s)	333
EcoT14I	CCWWGG	1 cut(s)	10
EcoT38I	GRGCYC	1 cut(s)	19
ErhI	CCWWGG	1 cut(s)	10
FaeI	CATG	3 cut(s)	279, 286, 589
FatI	CATG	3 cut(s)	275, 282, 585
FauI	CCCGC	1 cut(s)	664
FbaI	TGATCA	1 cut(s)	588
Fnu4HI	GCNGC	5 cut(s)	6, 153, 280, 404, 423
FokI	GGATG	4 cut(s)	418, 520, 633, 637
FriOI	GRGCYC	1 cut(s)	19
Fsp4HI	GCNGC	5 cut(s)	6, 153, 280, 404, 423
FspBI	CTAG	3 cut(s)	263, 542, 677
GluI	GCNGC	5 cut(s)	6, 153, 280, 404, 423
GsaI	CCCAGC	1 cut(s)	261
HaeIII	GGCC	2 cut(s)	39, 248
HapII	CCGG	2 cut(s)	249, 413
Hin1II	CATG	3 cut(s)	279, 286, 589
HinfI	GANTC	3 cut(s)	49, 145, 648
HpaII	CCGG	2 cut(s)	249, 413
HphI	GGTGA	3 cut(s)	247, 514, 631
Hpy166II	GTNNAC	2 cut(s)	310, 312
Hpy188I	TCNGA	3 cut(s)	130, 554, 563
Hpy188III	TCNNGA	3 cut(s)	20, 652, 677
Hpy8I	GTNNAC	2 cut(s)	310, 312
HpyAV	CCTTC	1 cut(s)	226
HpyCH4III	ACNGT	1 cut(s)	116
HpyCH4IV	ACGT	1 cut(s)	228
HpyCH4V	TGCA	5 cut(s)	191, 279, 458, 482, 539
HpyF10VI	GCNNNNNNNGC	7 cut(s)	14, 254, 389, 422, 428, 527, 536
HpySE526I	ACGT	1 cut(s)	228
Hsp92II	CATG	3 cut(s)	279, 286, 589
Ksp22I	TGATCA	1 cut(s)	588
Kzo9I	GATC	2 cut(s)	558, 588
LmnI	GCTCC	5 cut(s)	14, 164, 212, 246, 563
Lsp1109I	GCAGC	4 cut(s)	164, 291, 390, 409
LweI	GCATC	4 cut(s)	200, 228, 440, 498
MaeI	CTAG	3 cut(s)	263, 542, 677
MaeII	ACGT	1 cut(s)	228
MaeIII	GTNAC	2 cut(s)	20, 371
MalI	GATC	2 cut(s)	560, 590
MboI	GATC	2 cut(s)	558, 588
MboII	GAAGA	4 cut(s)	116, 119, 398, 409
MhlI	GDGCHC	1 cut(s)	19
MlsI	TGGCCA	1 cut(s)	39
MluCI	AATT	1 cut(s)	296
MluNI	TGGCCA	1 cut(s)	39
MlyI	GAGTC	1 cut(s)	642
MmeI	TCCRAC	1 cut(s)	190
MnlI	CCTC	4 cut(s)	498, 548, 570, 611
Mox20I	TGGCCA	1 cut(s)	39
MscI	TGGCCA	1 cut(s)	39
Msp20I	TGGCCA	1 cut(s)	39
MspA1I	CMGCKG	1 cut(s)	155
MspI	CCGG	2 cut(s)	249, 413
MspR9I	CCNGG	3 cut(s)	245, 250, 413
Mva1269I	GAATGC	1 cut(s)	385
MvaI	CCWGG	1 cut(s)	245
MvnI	CGCG	1 cut(s)	437
MwoI	GCNNNNNNNGC	7 cut(s)	14, 254, 389, 422, 428, 527, 536
NciI	CCSGG	2 cut(s)	250, 413
NdeII	GATC	2 cut(s)	558, 588
NlaIII	CATG	3 cut(s)	279, 286, 589
NlaIV	GGNNCC	1 cut(s)	465
NmuCI	GTSAC	1 cut(s)	20
NspI	RCATGY	1 cut(s)	279
PaeI	GCATGC	1 cut(s)	279
PctI	GAATGC	1 cut(s)	385
PfeI	GAWTC	2 cut(s)	49, 145
PkrI	GCNGC	5 cut(s)	7, 154, 281, 405, 424
PleI	GAGTC	1 cut(s)	642
PpsI	GAGTC	1 cut(s)	642
Psp124BI	GAGCTC	1 cut(s)	19
Psp6I	CCWGG	1 cut(s)	243
PspFI	CCCAGC	1 cut(s)	257
PspGI	CCWGG	1 cut(s)	243
PspN4I	GGNNCC	1 cut(s)	465
PvuII	CAGCTG	1 cut(s)	155
RsaI	GTAC	2 cut(s)	311, 609
RsaNI	GTAC	2 cut(s)	310, 608
SacI	GAGCTC	1 cut(s)	19
SatI	GCNGC	5 cut(s)	6, 153, 280, 404, 423
Sau3AI	GATC	2 cut(s)	558, 588
ScaI	AGTACT	1 cut(s)	609
SchI	GAGTC	1 cut(s)	642
ScrFI	CCNGG	3 cut(s)	245, 250, 413
SduI	GDGCHC	1 cut(s)	19
SfaNI	GCATC	4 cut(s)	200, 228, 440, 498
SfcI	CTRYAG	2 cut(s)	72, 450
SpeI	ACTAGT	1 cut(s)	541
SphI	GCATGC	1 cut(s)	279
Sse9I	AATT	1 cut(s)	296
SsiI	CCGC	3 cut(s)	383, 435, 671
SspMI	CTAG	3 cut(s)	263, 542, 677
SstI	GAGCTC	1 cut(s)	19
StyD4I	CCNGG	3 cut(s)	243, 248, 411
StyI	CCWWGG	1 cut(s)	10
TaaI	ACNGT	1 cut(s)	116
TaiI	ACGT	1 cut(s)	231
TasI	AATT	1 cut(s)	296
TatI	WGTACW	2 cut(s)	309, 607
TfiI	GAWTC	2 cut(s)	49, 145
TscAI	CASTG	1 cut(s)	465
TseFI	GTSAC	1 cut(s)	20
TseI	GCWGC	5 cut(s)	5, 152, 279, 403, 422
Tsp45I	GTSAC	1 cut(s)	20
TspDTI	ATGAA	3 cut(s)	48, 356, 371
TspRI	CASTG	1 cut(s)	465
XapI	RAATTY	1 cut(s)	296
XbaI	TCTAGA	1 cut(s)	676
XceI	RCATGY	1 cut(s)	279
XcmI	CCANNNNNNNNNTGG	1 cut(s)	32
XspI	CTAG	3 cut(s)	263, 542, 677
ZrmI	AGTACT	1 cut(s)	609

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