Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0006040

Physical Location & Seq

Genomic Coordinates Forward (+)

33680849 .. 33748727

Gene Structure 67879 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG288500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 531 bp

ATGGTGTGGGGCGTCAGAGGCTGCTTCTCCGTGGCCAACTCGAAGGGGCTGAAGGTCAAAGAATTGATCTACGACCAACCTTCAACAACATTGGAATGGTTCCAAGGTGGAGAGATTCCTCCTGAGATCGGAAAGACGGGCAGCTTGGAAGGTAGAGAAAAGCAAACAAAAACAGAAAAGGATATTGACATGAGGAGCTCTGTACTGAGGAAGGATTCCCCTTTGCACATCAAGAGTCGAGATAAATGGACTAAAGCAAGTGTTGGATTCAAAGCTGGTGTTAAAGATTATCAATTGACTTATCATACTCCGGAGTATGAAACCAAAGATACTGATATCTTGGCAGCATTTCGAGTAACCCCTCAACCTGGAGTTCCGCCTGAGGAAGCAGAGGCAGCGGTAGCTGCGGAATCTTCTACTGATACATGGACAACTGTATGGACTGATGGGCTTACCAGTCTTGATCGTTACAAAGGGCGATGCTATCACATTGAACCTGTTGCTGAAGAAAAAAATCAATTTATTGCTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000312 GO:0000313 GO:0000314 GO:0001101 GO:0005575 GO:0005576 GO:0005618 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0005840 GO:0008150 GO:0009507 GO:0009526 GO:0009532 GO:0009534 GO:0009535 GO:0009536 GO:0009547 GO:0009570 GO:0009579 GO:0009719 GO:0009725 GO:0009737 GO:0009941 GO:0010033 GO:0010035 GO:0010038 GO:0010287 GO:0015935 GO:0016020 GO:0022626 GO:0030312 GO:0031967 GO:0031975 GO:0031976 GO:0031984 GO:0032991 GO:0033993 GO:0034357 GO:0042221 GO:0042651 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044391 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044436 GO:0044444 GO:0044445 GO:0044446 GO:0044464 GO:0046686 GO:0048046 GO:0050896 GO:0055035 GO:0071944 GO:0097305 GO:1901700 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko00630 ko00710 ko01100 ko01120 ko01200 map00630 map00710 map01100 map01120 map01200

Pfam Domains

Protein Families

RuBisCO_large RuBisCO_large_N

Protein Analysis

176

Amino Acids

19.73

Weight (kDa)

5.7

Isoelectric Point (pI)

38.03

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RuBisCO_large_N	PF02788	101 - 172	9.4e-21	Ribulose bisphosphate carboxylase large chain, N-terminal 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: OG0006040)

Species	Orthologous Gene IDs
arabidopsis_thaliana	ATCG00490
malus_domestica	MD02G1049600.v1.1 MD11G1294900.v1.1 MD11G1295000.v1.1
prunus_persica	Prupe.7G029600_v2.0.a1
pyrus_communis	pycom08g13270 pycom12397g00250
rosa_chinensis	RchiOBHm_Chr5g0043011 RchiOBHm_CPg0502111
rosa_laevigata	RLG00000000069 RLG00000000106 RLG00000000163 RLG00000000221 RLG00000000257 RLG00000000267 RLG00000000290 RLG00000000329 RLG00000000350 RLG00000037105
rosa_roxburghii	Rroxscaffold_2G00087120 Rroxscaffold_3G00220720
rosa_rugosa	RorugMtG0002400.1
rosa_samantha	Rh2AG282300 Rh2BG293600 Rh2DG288500 Rh5BG295000 Rh5DG304800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccIII	TCCGGA	1 cut(s)	310
AciI	CCGC	3 cut(s)	377, 398, 407
AcoI	YGGCCR	1 cut(s)	33
AcuI	CTGAAG	2 cut(s)	71, 525
AcyI	GRCGYC	1 cut(s)	12
AfaI	GTAC	1 cut(s)	204
AfiI	CCNNNNNNNGG	2 cut(s)	128, 368
AgsI	TTSAA	3 cut(s)	84, 271, 494
AjnI	CCWGG	1 cut(s)	367
AluBI	AGCT	4 cut(s)	144, 198, 275, 404
AluI	AGCT	4 cut(s)	144, 198, 275, 404
Alw21I	GWGCWC	1 cut(s)	200
AlwNI	CAGNNNCTG	1 cut(s)	21
Aor13HI	TCCGGA	1 cut(s)	310
AoxI	GGCC	1 cut(s)	33
ApeKI	GCWGC	5 cut(s)	21, 141, 344, 395, 404
AxyI	CCTNAGG	1 cut(s)	381
BalI	TGGCCA	1 cut(s)	35
BanII	GRGCYC	1 cut(s)	200
Bbv12I	GWGCWC	1 cut(s)	200
BbvI	GCAGC	5 cut(s)	8, 153, 356, 391, 407
BccI	CCATC	1 cut(s)	440
BciT130I	CCWGG	1 cut(s)	369
BisI	GCNGC	5 cut(s)	22, 142, 345, 396, 405
BlsI	GCNGC	5 cut(s)	23, 143, 346, 397, 406
Bme1390I	CCNGG	1 cut(s)	369
BmiI	GGNNCC	1 cut(s)	101
BmrFI	CCNGG	1 cut(s)	369
BmsI	GCATC	1 cut(s)	470
BpmI	CTGGAG	1 cut(s)	390
BsaHI	GRCGYC	1 cut(s)	12
BsaJI	CCNNGG	2 cut(s)	30, 103
BsaWI	WCCGGW	1 cut(s)	310
Bsc4I	CCNNNNNNNGG	2 cut(s)	128, 368
Bse1I	ACTGG	1 cut(s)	456
Bse21I	CCTNAGG	1 cut(s)	381
BseAI	TCCGGA	1 cut(s)	310
BseBI	CCWGG	1 cut(s)	369
BseDI	CCNNGG	2 cut(s)	30, 103
BseLI	CCNNNNNNNGG	2 cut(s)	128, 368
BseMII	CTCAG	3 cut(s)	114, 197, 372
BseNI	ACTGG	1 cut(s)	456
BseRI	GAGGAG	1 cut(s)	208
BseXI	GCAGC	5 cut(s)	8, 153, 356, 391, 407
BshFI	GGCC	1 cut(s)	35
BsiHKAI	GWGCWC	1 cut(s)	200
BsiSI	CCGG	1 cut(s)	311
BslI	CCNNNNNNNGG	2 cut(s)	128, 368
BsnI	GGCC	1 cut(s)	35
Bsp1286I	GDGCHC	1 cut(s)	200
Bsp13I	TCCGGA	1 cut(s)	310
Bsp143I	GATC	3 cut(s)	66, 126, 463
BspACI	CCGC	3 cut(s)	377, 398, 407
BspANI	GGCC	1 cut(s)	35
BspCNI	CTCAG	3 cut(s)	115, 198, 373
BspEI	TCCGGA	1 cut(s)	310
BspLI	GGNNCC	1 cut(s)	101
BsrI	ACTGG	1 cut(s)	456
BssECI	CCNNGG	2 cut(s)	30, 103
BssMI	GATC	3 cut(s)	66, 126, 463
BssNI	GRCGYC	1 cut(s)	12
BssT1I	CCWWGG	1 cut(s)	103
Bst2UI	CCWGG	1 cut(s)	369
Bst4CI	ACNGT	1 cut(s)	436
BstACI	GRCGYC	1 cut(s)	12
BstDEI	CTNAG	4 cut(s)	123, 206, 381, 528
BstDSI	CCRYGG	1 cut(s)	30
BstKTI	GATC	3 cut(s)	69, 129, 466
BstMBI	GATC	3 cut(s)	66, 126, 463
BstMWI	GCNNNNNNNGC	4 cut(s)	18, 395, 401, 404
BstNI	CCWGG	1 cut(s)	369
BstSCI	CCNGG	1 cut(s)	367
BstV1I	GCAGC	5 cut(s)	8, 153, 356, 391, 407
Bsu36I	CCTNAGG	1 cut(s)	381
BsuRI	GGCC	1 cut(s)	35
BtgI	CCRYGG	1 cut(s)	30
BtgZI	GCGATG	1 cut(s)	493
CaiI	CAGNNNCTG	1 cut(s)	21
Csp6I	GTAC	1 cut(s)	203
CviAII	CATG	2 cut(s)	190, 426
CviJI	RGCY	8 cut(s)	21, 35, 49, 144, 198, 275, 404, 451
CviKI_1	RGCY	8 cut(s)	21, 35, 49, 144, 198, 275, 404, 451
CviQI	GTAC	1 cut(s)	203
DdeI	CTNAG	4 cut(s)	123, 206, 381, 528
DpnI	GATC	3 cut(s)	68, 128, 465
DpnII	GATC	3 cut(s)	66, 126, 463
EaeI	YGGCCR	1 cut(s)	33
EciI	GGCGGA	1 cut(s)	366
Ecl136II	GAGCTC	1 cut(s)	198
Eco130I	CCWWGG	1 cut(s)	103
Eco24I	GRGCYC	1 cut(s)	200
Eco32I	GATATC	1 cut(s)	337
Eco53kI	GAGCTC	1 cut(s)	198
Eco57I	CTGAAG	2 cut(s)	71, 525
Eco81I	CCTNAGG	1 cut(s)	381
EcoICRI	GAGCTC	1 cut(s)	198
EcoRII	CCWGG	1 cut(s)	367
EcoRV	GATATC	1 cut(s)	337
EcoT14I	CCWWGG	1 cut(s)	103
EcoT38I	GRGCYC	1 cut(s)	200
ErhI	CCWWGG	1 cut(s)	103
FaeI	CATG	2 cut(s)	193, 429
FaiI	YATR	5 cut(s)	191, 306, 318, 427, 439
FatI	CATG	2 cut(s)	189, 425
Fnu4HI	GCNGC	5 cut(s)	22, 142, 345, 396, 405
FriOI	GRGCYC	1 cut(s)	200
Fsp4HI	GCNGC	5 cut(s)	22, 142, 345, 396, 405
GluI	GCNGC	5 cut(s)	22, 142, 345, 396, 405
GsuI	CTGGAG	1 cut(s)	390
HaeIII	GGCC	1 cut(s)	35
HapII	CCGG	1 cut(s)	311
Hin1I	GRCGYC	1 cut(s)	12
Hin1II	CATG	2 cut(s)	193, 429
HinfI	GANTC	5 cut(s)	115, 215, 235, 267, 410
HpaII	CCGG	1 cut(s)	311
Hpy188I	TCNGA	2 cut(s)	17, 131
Hpy188III	TCNNGA	5 cut(s)	122, 232, 239, 311, 461
HpyAV	CCTTC	5 cut(s)	37, 46, 90, 143, 205
HpyCH4III	ACNGT	1 cut(s)	436
HpyCH4V	TGCA	1 cut(s)	226
HpyF10VI	GCNNNNNNNGC	4 cut(s)	18, 395, 401, 404
HpyF3I	CTNAG	4 cut(s)	123, 206, 381, 528
Hsp92I	GRCGYC	1 cut(s)	12
Hsp92II	CATG	2 cut(s)	193, 429
Kpn2I	TCCGGA	1 cut(s)	310
Kzo9I	GATC	3 cut(s)	66, 126, 463
LmnI	GCTCC	1 cut(s)	195
LpnPI	CCDG	8 cut(s)	135, 261, 324, 354, 381, 393, 469, 510
Lsp1109I	GCAGC	5 cut(s)	8, 153, 356, 391, 407
LweI	GCATC	1 cut(s)	470
MaeIII	GTNAC	2 cut(s)	355, 467
MalI	GATC	3 cut(s)	68, 128, 465
MboI	GATC	3 cut(s)	66, 126, 463
MboII	GAAGA	2 cut(s)	405, 518
MfeI	CAATTG	1 cut(s)	293
MhlI	GDGCHC	1 cut(s)	200
MlsI	TGGCCA	1 cut(s)	35
MluCI	AATT	3 cut(s)	62, 293, 518
MluNI	TGGCCA	1 cut(s)	35
MlyI	GAGTC	1 cut(s)	244
MmeI	TCCRAC	1 cut(s)	244
MnlI	CCTC	7 cut(s)	11, 129, 186, 201, 372, 376, 385
Mox20I	TGGCCA	1 cut(s)	35
MroI	TCCGGA	1 cut(s)	310
MscI	TGGCCA	1 cut(s)	35
MseI	TTAA	1 cut(s)	282
MslI	CAYNNNNRTG	1 cut(s)	94
Msp20I	TGGCCA	1 cut(s)	35
MspA1I	CMGCKG	1 cut(s)	398
MspI	CCGG	1 cut(s)	311
MspR9I	CCNGG	1 cut(s)	369
MunI	CAATTG	1 cut(s)	293
MvaI	CCWGG	1 cut(s)	369
MwoI	GCNNNNNNNGC	4 cut(s)	18, 395, 401, 404
NdeII	GATC	3 cut(s)	66, 126, 463
NlaIII	CATG	2 cut(s)	193, 429
NlaIV	GGNNCC	1 cut(s)	101
PfeI	GAWTC	4 cut(s)	115, 215, 267, 410
PkrI	GCNGC	5 cut(s)	23, 143, 346, 397, 406
PleI	GAGTC	1 cut(s)	243
PpsI	GAGTC	1 cut(s)	243
Psp124BI	GAGCTC	1 cut(s)	200
Psp6I	CCWGG	1 cut(s)	367
PspGI	CCWGG	1 cut(s)	367
PspN4I	GGNNCC	1 cut(s)	101
PstNI	CAGNNNCTG	1 cut(s)	21
RsaI	GTAC	1 cut(s)	204
RsaNI	GTAC	1 cut(s)	203
RseI	CAYNNNNRTG	1 cut(s)	94
SacI	GAGCTC	1 cut(s)	200
SaqAI	TTAA	1 cut(s)	282
SatI	GCNGC	5 cut(s)	22, 142, 345, 396, 405
Sau3AI	GATC	3 cut(s)	66, 126, 463
SchI	GAGTC	1 cut(s)	244
ScrFI	CCNGG	1 cut(s)	369
SduI	GDGCHC	1 cut(s)	200
SfaNI	GCATC	1 cut(s)	470
SmiMI	CAYNNNNRTG	1 cut(s)	94
Sse9I	AATT	3 cut(s)	62, 293, 518
SsiI	CCGC	3 cut(s)	377, 398, 407
SstI	GAGCTC	1 cut(s)	200
StyD4I	CCNGG	1 cut(s)	367
StyI	CCWWGG	1 cut(s)	103
TaaI	ACNGT	1 cut(s)	436
TaqI	TCGA	3 cut(s)	41, 238, 352
TasI	AATT	3 cut(s)	62, 293, 518
TatI	WGTACW	1 cut(s)	202
TfiI	GAWTC	4 cut(s)	115, 215, 267, 410
Tru1I	TTAA	1 cut(s)	282
Tru9I	TTAA	1 cut(s)	282
TseI	GCWGC	5 cut(s)	21, 141, 344, 395, 404
TspDTI	ATGAA	1 cut(s)	333
TspGWI	ACGGA	1 cut(s)	19

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