Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0001469

Physical Location & Seq

Genomic Coordinates Reverse (-)

2851565 .. 2864814

Gene Structure 13250 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG031400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 429 bp

ATGTGCTTTGCTGGGTTTCAGGACTTGAATGAGTGGCCTGTTCTTAAAGCCCTTCCATCTTATGGTAGAAGAAGAGATGCAGCAGCTGGAAGGTACTCCGGTCTCATATTTAGATCAAATCTCGCTCATGTCATTATTACGGACATGCCATCCAATACTATATCAAGAAGAACCAGGAGAATGTTGAGACAATGTGATCGCACTGAAAATTGTGCTCCAACAAATGTGTTCTTTACTAGCGATGAATCTCACCAAGTCATATCACGGAAGTCAAAGAGGTGGAAAGCTGCATCTCAGCAACCAGCTACTGAAGCATTAGATACTTTATCTGGAAATCATGAACAAAACGTTGCTGCACCTATAAATGAGAATTTATTAGTTGGGACAGCATCACATATCGATTATTCAATCACAGAAGAGACTCGGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Glyco_hydro_28 Pectate_lyase_3

Protein Analysis

142

Amino Acids

16.0

Weight (kDa)

8.96

Isoelectric Point (pI)

62.77

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0001469)

Species	Orthologous Gene IDs
malus_domestica	MD01G1068900.v1.1
rosa_chinensis	RchiOBHm_Chr1g0328881 RchiOBHm_Chr2g0103941 RchiOBHm_Chr2g0148771 RchiOBHm_Chr5g0081751 RchiOBHm_Chr6g0251601 RchiOBHm_Chr6g0252891 RchiOBHm_Chr6g0261041
rosa_laevigata	RLG00000009276
rosa_multiflora	Rmu_sc0002607.1_g000054
rosa_roxburghii	Rroxscaffold_3G00226620 Rroxscaffold_3G00261660 Rroxscaffold_6G00387930 Rroxscaffold_7G00214780
rosa_rugosa	Rorug01G0154400.1 Rorug02G0266600.1 Rorug03G0008400 Rorug03G0200100 Rorug05G0519500 Rorug06G0005400.1 Rorug06G0320100 Rorug07G0042900
rosa_samantha	Rh1AG156000 Rh1AG219000 Rh1BG044200 Rh1DG160300 Rh2BG398200 Rh2BG403900 Rh2BG460500 Rh2CG000900 Rh2CG307500 Rh2CG547200 Rh2DG469900 Rh4CG118200 Rh4DG178300 Rh5CG178000 Rh5CG304800 Rh5CG363400 Rh5DG164400 Rh6AG114000 Rh6AG247400 Rh6BG059200 Rh6BG107600 Rh6CG031400 Rh6CG104700 Rh6DG029900 Rh6DG095500 Rh7BG290500
rosa_wichuraiana	Rw1G002350 Rw4G023590 Rw5G005770 Rw6G009740

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	62
AclI	AACGTT	1 cut(s)	348
AcsI	RAATTY	1 cut(s)	370
AcuI	CTGAAG	1 cut(s)	330
AfaI	GTAC	1 cut(s)	95
AfiI	CCNNNNNNNGG	1 cut(s)	62
AgsI	TTSAA	2 cut(s)	28, 408
AjnI	CCWGG	1 cut(s)	173
AluBI	AGCT	3 cut(s)	86, 287, 305
AluI	AGCT	3 cut(s)	86, 287, 305
Alw21I	GWGCWC	1 cut(s)	217
Alw26I	GTCTC	3 cut(s)	107, 181, 413
AlwNI	CAGNNNCTG	2 cut(s)	86, 308
AoxI	GGCC	1 cut(s)	35
ApeKI	GCWGC	4 cut(s)	80, 83, 287, 353
ApoI	RAATTY	1 cut(s)	370
AsuHPI	GGTGA	1 cut(s)	242
BaeI	ACNNNNGTAYC	2 cut(s)	85, 118
Bbv12I	GWGCWC	1 cut(s)	217
BbvI	GCAGC	4 cut(s)	92, 95, 274, 340
BccI	CCATC	2 cut(s)	64, 157
BciT130I	CCWGG	1 cut(s)	175
BcoDI	GTCTC	3 cut(s)	107, 181, 413
BfaI	CTAG	1 cut(s)	237
BisI	GCNGC	4 cut(s)	81, 84, 288, 354
BlsI	GCNGC	4 cut(s)	82, 85, 289, 355
Bme1390I	CCNGG	1 cut(s)	175
BmrFI	CCNGG	1 cut(s)	175
BmsI	GCATC	3 cut(s)	67, 299, 398
Bsa29I	ATCGAT	1 cut(s)	399
BsaI	GGTCTC	1 cut(s)	107
BsaWI	WCCGGW	1 cut(s)	98
Bsc4I	CCNNNNNNNGG	1 cut(s)	62
BseBI	CCWGG	1 cut(s)	175
BseCI	ATCGAT	1 cut(s)	399
BseGI	GGATG	1 cut(s)	149
BseLI	CCNNNNNNNGG	1 cut(s)	62
BseMII	CTCAG	1 cut(s)	308
BseXI	GCAGC	4 cut(s)	92, 95, 274, 340
BseYI	CCCAGC	1 cut(s)	11
BsgI	GTGCAG	1 cut(s)	339
BshFI	GGCC	1 cut(s)	37
BshVI	ATCGAT	1 cut(s)	399
BsiHKAI	GWGCWC	1 cut(s)	217
BsiSI	CCGG	1 cut(s)	99
BslFI	GGGAC	1 cut(s)	397
BslI	CCNNNNNNNGG	1 cut(s)	62
BsmAI	GTCTC	3 cut(s)	107, 181, 413
BsmFI	GGGAC	1 cut(s)	397
BsnI	GGCC	1 cut(s)	37
Bso31I	GGTCTC	1 cut(s)	107
Bsp1286I	GDGCHC	1 cut(s)	217
Bsp143I	GATC	2 cut(s)	113, 196
BspANI	GGCC	1 cut(s)	37
BspCNI	CTCAG	1 cut(s)	307
BspDI	ATCGAT	1 cut(s)	399
BspHI	TCATGA	1 cut(s)	337
BspTNI	GGTCTC	1 cut(s)	107
BssMI	GATC	2 cut(s)	113, 196
Bst2UI	CCWGG	1 cut(s)	175
Bst6I	CTCTTC	2 cut(s)	67, 411
BstDEI	CTNAG	1 cut(s)	294
BstF5I	GGATG	1 cut(s)	149
BstKTI	GATC	2 cut(s)	116, 199
BstMAI	GTCTC	3 cut(s)	107, 181, 413
BstMBI	GATC	2 cut(s)	113, 196
BstMWI	GCNNNNNNNGC	1 cut(s)	311
BstNI	CCWGG	1 cut(s)	175
BstNSI	RCATGY	1 cut(s)	148
BstSCI	CCNGG	1 cut(s)	173
BstV1I	GCAGC	4 cut(s)	92, 95, 274, 340
Bsu15I	ATCGAT	1 cut(s)	399
BsuRI	GGCC	1 cut(s)	37
BsuTUI	ATCGAT	1 cut(s)	399
BtgZI	GCGATG	1 cut(s)	255
BtsCI	GGATG	1 cut(s)	149
BtsIMutI	CAGTG	1 cut(s)	201
CaiI	CAGNNNCTG	2 cut(s)	86, 308
CciI	TCATGA	1 cut(s)	337
ClaI	ATCGAT	1 cut(s)	399
Csp6I	GTAC	1 cut(s)	94
CviAII	CATG	3 cut(s)	128, 145, 338
CviJI	RGCY	5 cut(s)	37, 50, 86, 287, 305
CviKI_1	RGCY	5 cut(s)	37, 50, 86, 287, 305
CviQI	GTAC	1 cut(s)	94
DdeI	CTNAG	1 cut(s)	294
DpnI	GATC	2 cut(s)	115, 198
DpnII	GATC	2 cut(s)	113, 196
Eam1104I	CTCTTC	2 cut(s)	67, 411
EarI	CTCTTC	2 cut(s)	67, 411
Eco31I	GGTCTC	1 cut(s)	107
Eco57I	CTGAAG	1 cut(s)	330
EcoRII	CCWGG	1 cut(s)	173
FaeI	CATG	3 cut(s)	131, 148, 341
FaiI	YATR	9 cut(s)	63, 107, 129, 146, 161, 260, 339, 362, 396
FaqI	GGGAC	1 cut(s)	397
FatI	CATG	3 cut(s)	127, 144, 337
Fnu4HI	GCNGC	4 cut(s)	81, 84, 288, 354
FokI	GGATG	1 cut(s)	136
Fsp4HI	GCNGC	4 cut(s)	81, 84, 288, 354
FspBI	CTAG	1 cut(s)	237
GluI	GCNGC	4 cut(s)	81, 84, 288, 354
GsaI	CCCAGC	1 cut(s)	15
HaeIII	GGCC	1 cut(s)	37
HapII	CCGG	1 cut(s)	99
Hin1II	CATG	3 cut(s)	131, 148, 341
HinfI	GANTC	2 cut(s)	245, 421
HpaII	CCGG	1 cut(s)	99
HphI	GGTGA	1 cut(s)	242
Hpy188III	TCNNGA	4 cut(s)	20, 165, 330, 338
HpyAV	CCTTC	2 cut(s)	62, 84
HpyCH4IV	ACGT	1 cut(s)	348
HpyCH4V	TGCA	3 cut(s)	80, 290, 356
HpyF10VI	GCNNNNNNNGC	1 cut(s)	311
HpyF3I	CTNAG	1 cut(s)	294
HpySE526I	ACGT	1 cut(s)	348
Hsp92II	CATG	3 cut(s)	131, 148, 341
Kzo9I	GATC	2 cut(s)	113, 196
LmnI	GCTCC	1 cut(s)	220
LpnPI	CCDG	8 cut(s)	5, 51, 72, 112, 160, 187, 315, 315
Lsp1109I	GCAGC	4 cut(s)	92, 95, 274, 340
LweI	GCATC	3 cut(s)	67, 299, 398
MaeI	CTAG	1 cut(s)	237
MaeII	ACGT	1 cut(s)	348
MalI	GATC	2 cut(s)	115, 198
MboI	GATC	2 cut(s)	113, 196
MboII	GAAGA	4 cut(s)	81, 84, 180, 428
MhlI	GDGCHC	1 cut(s)	217
MluCI	AATT	2 cut(s)	208, 370
MlyI	GAGTC	1 cut(s)	415
MmeI	TCCRAC	1 cut(s)	242
MnlI	CCTC	1 cut(s)	270
MseI	TTAA	1 cut(s)	45
MspA1I	CMGCKG	1 cut(s)	86
MspI	CCGG	1 cut(s)	99
MspR9I	CCNGG	1 cut(s)	175
MvaI	CCWGG	1 cut(s)	175
MwoI	GCNNNNNNNGC	1 cut(s)	311
NdeII	GATC	2 cut(s)	113, 196
NlaIII	CATG	3 cut(s)	131, 148, 341
NspI	RCATGY	1 cut(s)	148
PagI	TCATGA	1 cut(s)	337
PfeI	GAWTC	1 cut(s)	245
PflMI	CCANNNNNTGG	1 cut(s)	62
PkrI	GCNGC	4 cut(s)	82, 85, 289, 355
PleI	GAGTC	1 cut(s)	415
PpsI	GAGTC	1 cut(s)	415
Psp1406I	AACGTT	1 cut(s)	348
Psp6I	CCWGG	1 cut(s)	173
PspFI	CCCAGC	1 cut(s)	11
PspGI	CCWGG	1 cut(s)	173
PstNI	CAGNNNCTG	2 cut(s)	86, 308
PvuII	CAGCTG	1 cut(s)	86
RsaI	GTAC	1 cut(s)	95
RsaNI	GTAC	1 cut(s)	94
SaqAI	TTAA	1 cut(s)	45
SatI	GCNGC	4 cut(s)	81, 84, 288, 354
Sau3AI	GATC	2 cut(s)	113, 196
SchI	GAGTC	1 cut(s)	415
ScrFI	CCNGG	1 cut(s)	175
SduI	GDGCHC	1 cut(s)	217
SetI	ASST	7 cut(s)	88, 95, 281, 289, 307, 351, 361
SfaNI	GCATC	3 cut(s)	67, 299, 398
Sse9I	AATT	2 cut(s)	208, 370
SspMI	CTAG	1 cut(s)	237
StyD4I	CCNGG	1 cut(s)	173
TaiI	ACGT	1 cut(s)	351
TaqI	TCGA	1 cut(s)	399
TasI	AATT	2 cut(s)	208, 370
TfiI	GAWTC	1 cut(s)	245
Tru1I	TTAA	1 cut(s)	45
Tru9I	TTAA	1 cut(s)	45
TscAI	CASTG	1 cut(s)	208
TseI	GCWGC	4 cut(s)	80, 83, 287, 353
TspDTI	ATGAA	2 cut(s)	258, 354
TspGWI	ACGGA	2 cut(s)	155, 280
TspRI	CASTG	1 cut(s)	208
Van91I	CCANNNNNTGG	1 cut(s)	62
XapI	RAATTY	1 cut(s)	370
XceI	RCATGY	1 cut(s)	148
XspI	CTAG	1 cut(s)	237

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