Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0010602

Physical Location & Seq

Genomic Coordinates Forward (+)

45527774 .. 45546832

Gene Structure 19059 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG243800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 648 bp

ATGGCCGACGTCGCCACCCTGTCGTGTGCTCGTTGCAGCAAACCCGCCAATCTTCAGTGTCCCAAGTGTGTGGAATTGAAGCTTCCTCATGAAGATGCCGCTTTCTGCACTCAGGATTGTTTTAAGGTTTCGTGGAGCTTGCATAAATCGAAATTGAGCAAAGCAGAAAAAGTTGAATGGAACAACCGGGGGTTCTCAACTGTTCATGTTATTGCTGTAGCAGTTGCATCTTTTTACCTTATACTCTTATCAGATACATTTCATGAGGGTTATAGTGATGAGCTGATCATTAGTAGAAGATCCACTTTTTCATATACAACATTGGGGATCTCCATTGGTTATTTTCTGGCAGACATAGCAATGATTTTTTGGCATTTTCCTGCTTTAGGTGGACTGGAGTATTTACATATGTTTTATCAGGTTGCAAGGATTCTTTTGTTCATTTACTTTTTTGTCCACATGTTTTTCCATTTTCATCAATGTGATTATGATCGTCTGCAATTATCAACTAGTCCATTTCTAGAGAGGAATATGGAATTTCTTATTGAGTGCATGGATGATTTGTCAATGAAACAGCAGAAGACTCTTTTGAGCGTAGCATTTTTTTTAAGTTCTTTGTTTGGTTGCCATGAATATAGATATCAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006950 GO:0006970 GO:0008150 GO:0009628 GO:0009651 GO:0009987 GO:0019725 GO:0042592 GO:0043167 GO:0043169 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0045454 GO:0046872 GO:0046914 GO:0050789 GO:0050794 GO:0050896 GO:0050897 GO:0065007 GO:0065008

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

TRAM_LAG1_CLN8

Protein Analysis

215

Amino Acids

24.98

Weight (kDa)

6.34

Isoelectric Point (pI)

41.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C6H2	PF15801	10 - 50	6e-12	zf-MYND-like zinc finger, mRNA-binding
TRAM_LAG1_CLN8	PF03798	59 - 158	1.2e-07	TLC domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0010602)

Species	Orthologous Gene IDs
malus_domestica	MD02G1021400.v1.1
rosa_chinensis	RchiOBHm_Chr2g0147701
rosa_multiflora	Rmu_sc0002539.1_g000114 Rmu_sc0002962.1_g000011 Rmu_sc0012140.1_g000022
rosa_roxburghii	Rroxscaffold_1G00028980 Rroxscaffold_2G00115540 Rroxscaffold_3G00249070 Rroxscaffold_4G00302130 Rroxscaffold_5G00354320 Rroxscaffold_5G00379670 Rroxscaffold_7G00216570
rosa_rugosa	Rorug06G0011500
rosa_samantha	Rh1AG132500 Rh2AG214900 Rh2DG220500 Rh3AG255900 Rh3BG204400 Rh3BG373500 Rh4DG243800 Rh5AG113900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	12
AciI	CCGC	2 cut(s)	45, 99
AclWI	GGATC	2 cut(s)	294, 335
AcoI	YGGCCR	1 cut(s)	3
AcsI	RAATTY	1 cut(s)	536
AcuI	CTGAAG	1 cut(s)	38
AcyI	GRCGYC	1 cut(s)	9
AfiI	CCNNNNNNNGG	1 cut(s)	386
AflIII	ACRYGT	1 cut(s)	459
AgsI	TTSAA	2 cut(s)	79, 176
AhlI	ACTAGT	1 cut(s)	509
AluBI	AGCT	3 cut(s)	82, 138, 283
AluI	AGCT	3 cut(s)	82, 138, 283
Alw21I	GWGCWC	1 cut(s)	31
AlwI	GGATC	2 cut(s)	294, 335
AoxI	GGCC	1 cut(s)	3
ApeKI	GCWGC	1 cut(s)	36
ApoI	RAATTY	1 cut(s)	536
AsuC2I	CCSGG	1 cut(s)	188
BbsI	GAAGAC	1 cut(s)	587
Bbv12I	GWGCWC	1 cut(s)	31
BbvI	GCAGC	1 cut(s)	48
BclI	TGATCA	1 cut(s)	285
BcnI	CCSGG	1 cut(s)	188
BcuI	ACTAGT	1 cut(s)	509
BfaI	CTAG	2 cut(s)	510, 521
BfmI	CTRYAG	1 cut(s)	216
BisI	GCNGC	2 cut(s)	37, 99
BlsI	GCNGC	2 cut(s)	38, 100
Bme1390I	CCNGG	1 cut(s)	188
BmrFI	CCNGG	1 cut(s)	188
BmsI	GCATC	2 cut(s)	85, 236
BpiI	GAAGAC	1 cut(s)	587
BpmI	CTGGAG	1 cut(s)	416
BpuMI	CCSGG	1 cut(s)	188
BsaBI	GATNNNNATC	1 cut(s)	489
BsaHI	GRCGYC	1 cut(s)	9
BsaJI	CCNNGG	1 cut(s)	187
Bsc4I	CCNNNNNNNGG	1 cut(s)	386
Bse1I	ACTGG	1 cut(s)	399
Bse3DI	GCAATG	1 cut(s)	366
Bse8I	GATNNNNATC	1 cut(s)	489
BseDI	CCNNGG	1 cut(s)	187
BseGI	GGATG	1 cut(s)	562
BseJI	GATNNNNATC	1 cut(s)	489
BseLI	CCNNNNNNNGG	1 cut(s)	386
BseMI	GCAATG	1 cut(s)	366
BseMII	CTCAG	1 cut(s)	125
BseNI	ACTGG	1 cut(s)	399
BseXI	GCAGC	1 cut(s)	48
BsgI	GTGCAG	1 cut(s)	91
BshFI	GGCC	1 cut(s)	5
BsiHKAI	GWGCWC	1 cut(s)	31
BsiSI	CCGG	1 cut(s)	187
BslFI	GGGAC	1 cut(s)	45
BslI	CCNNNNNNNGG	1 cut(s)	386
BsmFI	GGGAC	1 cut(s)	45
BsnI	GGCC	1 cut(s)	5
Bsp1286I	GDGCHC	1 cut(s)	31
Bsp143I	GATC	4 cut(s)	285, 299, 327, 490
BspACI	CCGC	2 cut(s)	45, 99
BspANI	GGCC	1 cut(s)	5
BspCNI	CTCAG	1 cut(s)	124
BspHI	TCATGA	2 cut(s)	88, 262
BspPI	GGATC	2 cut(s)	294, 335
BsrDI	GCAATG	1 cut(s)	366
BsrI	ACTGG	1 cut(s)	399
BssECI	CCNNGG	1 cut(s)	187
BssMI	GATC	4 cut(s)	285, 299, 327, 490
BssNI	GRCGYC	1 cut(s)	9
Bst4CI	ACNGT	1 cut(s)	202
BstACI	GRCGYC	1 cut(s)	9
BstC8I	GCNNGC	1 cut(s)	140
BstDEI	CTNAG	1 cut(s)	111
BstENI	CCTNNNNNAGG	1 cut(s)	384
BstF5I	GGATG	1 cut(s)	562
BstKTI	GATC	4 cut(s)	288, 302, 330, 493
BstMBI	GATC	4 cut(s)	285, 299, 327, 490
BstMWI	GCNNNNNNNGC	2 cut(s)	11, 356
BstNSI	RCATGY	1 cut(s)	463
BstSCI	CCNGG	1 cut(s)	186
BstSFI	CTRYAG	1 cut(s)	216
BstV1I	GCAGC	1 cut(s)	48
BstV2I	GAAGAC	1 cut(s)	587
BstX2I	RGATCY	2 cut(s)	299, 327
BstXI	CCANNNNNNTGG	1 cut(s)	70
BstYI	RGATCY	2 cut(s)	299, 327
BsuRI	GGCC	1 cut(s)	5
BtsCI	GGATG	1 cut(s)	562
BtsIMutI	CAGTG	1 cut(s)	62
Cac8I	GCNNGC	1 cut(s)	140
CciI	TCATGA	2 cut(s)	88, 262
CviAII	CATG	6 cut(s)	89, 206, 263, 460, 553, 629
CviJI	RGCY	4 cut(s)	5, 82, 138, 283
CviKI_1	RGCY	4 cut(s)	5, 82, 138, 283
DdeI	CTNAG	1 cut(s)	111
DpnI	GATC	4 cut(s)	287, 301, 329, 492
DpnII	GATC	4 cut(s)	285, 299, 327, 490
EaeI	YGGCCR	1 cut(s)	3
Eco32I	GATATC	1 cut(s)	641
Eco57I	CTGAAG	1 cut(s)	38
EcoNI	CCTNNNNNAGG	1 cut(s)	384
EcoRV	GATATC	1 cut(s)	641
FaeI	CATG	6 cut(s)	92, 209, 266, 463, 556, 632
FalI	AAGNNNNNCTT	2 cut(s)	289, 321
FaqI	GGGAC	1 cut(s)	45
FatI	CATG	6 cut(s)	88, 205, 262, 459, 552, 628
FauI	CCCGC	1 cut(s)	52
FauNDI	CATATG	1 cut(s)	408
FbaI	TGATCA	1 cut(s)	285
Fnu4HI	GCNGC	2 cut(s)	37, 99
FokI	GGATG	1 cut(s)	569
Fsp4HI	GCNGC	2 cut(s)	37, 99
FspBI	CTAG	2 cut(s)	510, 521
GluI	GCNGC	2 cut(s)	37, 99
GsuI	CTGGAG	1 cut(s)	416
HaeIII	GGCC	1 cut(s)	5
HapII	CCGG	1 cut(s)	187
Hin1I	GRCGYC	1 cut(s)	9
Hin1II	CATG	6 cut(s)	92, 209, 266, 463, 556, 632
HindIII	AAGCTT	1 cut(s)	80
HinfI	GANTC	2 cut(s)	430, 583
HpaII	CCGG	1 cut(s)	187
Hpy166II	GTNNAC	2 cut(s)	392, 457
Hpy188I	TCNGA	1 cut(s)	253
Hpy188III	TCNNGA	4 cut(s)	89, 113, 263, 521
Hpy8I	GTNNAC	2 cut(s)	392, 457
Hpy99I	CGWCG	2 cut(s)	11, 14
HpyCH4III	ACNGT	1 cut(s)	202
HpyCH4IV	ACGT	1 cut(s)	9
HpyCH4V	TGCA	7 cut(s)	36, 108, 142, 227, 425, 499, 552
HpyF10VI	GCNNNNNNNGC	2 cut(s)	11, 356
HpyF3I	CTNAG	1 cut(s)	111
HpySE526I	ACGT	1 cut(s)	9
Hsp92I	GRCGYC	1 cut(s)	9
Hsp92II	CATG	6 cut(s)	92, 209, 266, 463, 556, 632
Ksp22I	TGATCA	1 cut(s)	285
Kzo9I	GATC	4 cut(s)	285, 299, 327, 490
LmnI	GCTCC	1 cut(s)	135
LpnPI	CCDG	7 cut(s)	32, 98, 200, 332, 380, 393, 404
Lsp1109I	GCAGC	1 cut(s)	48
LweI	GCATC	2 cut(s)	85, 236
MaeI	CTAG	2 cut(s)	510, 521
MaeII	ACGT	1 cut(s)	9
MalI	GATC	4 cut(s)	287, 301, 329, 492
MboI	GATC	4 cut(s)	285, 299, 327, 490
MboII	GAAGA	4 cut(s)	44, 104, 309, 592
MflI	RGATCY	2 cut(s)	299, 327
MhlI	GDGCHC	1 cut(s)	31
MluCI	AATT	4 cut(s)	74, 152, 500, 536
MlyI	GAGTC	1 cut(s)	577
MnlI	CCTC	3 cut(s)	96, 259, 519
MseI	TTAA	2 cut(s)	123, 608
MslI	CAYNNNNRTG	3 cut(s)	93, 359, 480
MspI	CCGG	1 cut(s)	187
MspR9I	CCNGG	1 cut(s)	188
MwoI	GCNNNNNNNGC	2 cut(s)	11, 356
NciI	CCSGG	1 cut(s)	188
NdeI	CATATG	1 cut(s)	408
NdeII	GATC	4 cut(s)	285, 299, 327, 490
NlaIII	CATG	6 cut(s)	92, 209, 266, 463, 556, 632
NspI	RCATGY	1 cut(s)	463
PagI	TCATGA	2 cut(s)	88, 262
PciI	ACATGT	1 cut(s)	459
PfeI	GAWTC	1 cut(s)	430
PkrI	GCNGC	2 cut(s)	38, 100
PleI	GAGTC	1 cut(s)	577
PpsI	GAGTC	1 cut(s)	577
PscI	ACATGT	1 cut(s)	459
PsuI	RGATCY	2 cut(s)	299, 327
RseI	CAYNNNNRTG	3 cut(s)	93, 359, 480
SaqAI	TTAA	2 cut(s)	123, 608
SatI	GCNGC	2 cut(s)	37, 99
Sau3AI	GATC	4 cut(s)	285, 299, 327, 490
SchI	GAGTC	1 cut(s)	577
ScrFI	CCNGG	1 cut(s)	188
SduI	GDGCHC	1 cut(s)	31
SetI	ASST	8 cut(s)	12, 84, 129, 140, 240, 285, 391, 423
SfaNI	GCATC	2 cut(s)	85, 236
SfcI	CTRYAG	1 cut(s)	216
SmiMI	CAYNNNNRTG	3 cut(s)	93, 359, 480
SpeI	ACTAGT	1 cut(s)	509
Sse9I	AATT	4 cut(s)	74, 152, 500, 536
SsiI	CCGC	2 cut(s)	45, 99
SspMI	CTAG	2 cut(s)	510, 521
StyD4I	CCNGG	1 cut(s)	186
TaaI	ACNGT	1 cut(s)	202
TaiI	ACGT	1 cut(s)	12
TaqI	TCGA	1 cut(s)	149
TasI	AATT	4 cut(s)	74, 152, 500, 536
TauI	GCSGC	1 cut(s)	101
TfiI	GAWTC	1 cut(s)	430
Tru1I	TTAA	2 cut(s)	123, 608
Tru9I	TTAA	2 cut(s)	123, 608
TscAI	CASTG	1 cut(s)	62
TseI	GCWGC	1 cut(s)	36
TspDTI	ATGAA	8 cut(s)	105, 194, 251, 300, 430, 464, 584, 645
TspRI	CASTG	1 cut(s)	62
XagI	CCTNNNNNAGG	1 cut(s)	384
XapI	RAATTY	1 cut(s)	536
XbaI	TCTAGA	1 cut(s)	520
XceI	RCATGY	1 cut(s)	463
XspI	CTAG	2 cut(s)	510, 521
ZraI	GACGTC	1 cut(s)	10

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