Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0000396

Physical Location & Seq

Genomic Coordinates Reverse (-)

52639345 .. 52640082

Gene Structure 738 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG296900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 564 bp

ATGGCTGCAACAACTGCTATGCAATCAGTCCTTGGAAGCTCCATTGCCTACGGAGCTGCAGGCAACAACAGATCACTGAACCCACGGAGTACCGTTCCGGCTAGTTATGCAGTTTCGAGCTATCTCAGGGTTCGCTCAATGGCGGAGGATGGTCAAAAGAAGCAACCACCAACTGTAACAAAAGCCTCAAAGGATCCCCAGCCTGCAGCTTCTCCACCATCTCCCAAGTTTTCAGACGTGTTTGCATTCAGTGGACCAGCACCGGAGAGAATCAACGGCAGGCTGGCAATGGTGGGCTTCGTTGCGGCTCTGGCTGTCGAACTATCAAAGGGGCAAGATGTGTTTGCTCAGATATCCAACGGCCCCGGAGTACCTTTGTTCATCGGCACAAGTATTTTGGTATCAGTAGCATCCTTGGTTCCTCTATTGAAAGGAGTGACCGTGGAGTCCAAATCCGACGGGATCTTTACCTCGGATGCAGAGCTCTGGAATGGAAGGTTGGCCATGTTGGGTCTTGTAGCTTTGGCCTTCACTGAGTACATGACCGGCAGTGCCCTAGTGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006810 GO:0006950 GO:0008150 GO:0009266 GO:0009314 GO:0009408 GO:0009409 GO:0009411 GO:0009416 GO:0009507 GO:0009534 GO:0009535 GO:0009536 GO:0009579 GO:0009628 GO:0009637 GO:0009639 GO:0009642 GO:0009644 GO:0009889 GO:0009987 GO:0010029 GO:0010030 GO:0010114 GO:0010117 GO:0010218 GO:0010224 GO:0010380 GO:0016020 GO:0019222 GO:0031323 GO:0031326 GO:0031976 GO:0031984 GO:0033554 GO:0034357 GO:0034605 GO:0034644 GO:0042651 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044436 GO:0044444 GO:0044446 GO:0044464 GO:0048518 GO:0048580 GO:0048582 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051094 GO:0051171 GO:0051179 GO:0051193 GO:0051234 GO:0051239 GO:0051240 GO:0051716 GO:0055035 GO:0055085 GO:0065007 GO:0070141 GO:0071214 GO:0071478 GO:0071482 GO:0071483 GO:0071484 GO:0071486 GO:0071489 GO:0071490 GO:0071491 GO:0071492 GO:0080167 GO:0090056 GO:0104004 GO:1900140 GO:1901401 GO:1901463 GO:2000026

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Chloroa_b-bind

Protein Analysis

187

Amino Acids

19.31

Weight (kDa)

9.3

Isoelectric Point (pI)

45.76

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Chloroa_b-bind	PF00504	87 - 179	6.8e-10	Chlorophyll A-B binding protein

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: OG0000396)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G22840 AT4G14690
fragaria_vesca	FvH4_2g20400 FvH4_2g20420 FvH4_2g20430 FvH4_4g01290 FvH4_4g01310 FvH4_5g09070
malus_domestica	MD06G1134100.v1.1 MD13G1200100.v1.1 MD13G1200300.v1.1 MD13G1200600.v1.1 MD14G1150400.v1.1 MD16G1200000.v1.1
prunus_persica	Prupe.1G021400_v2.0.a1 Prupe.1G021500_v2.0.a1 Prupe.1G021600_v2.0.a1 Prupe.1G021700_v2.0.a1 Prupe.1G021800_v2.0.a1
pyrus_communis	pycom13g17350 pycom13g17370 pycom13g17400 pycom13g17410 pycom16g16870
rosa_chinensis	RchiOBHm_Chr4g0387791 RchiOBHm_Chr4g0387801 RchiOBHm_Chr6g0286501 RchiOBHm_Chr6g0286511 RchiOBHm_Chr6g0286521 RchiOBHm_Chr6g0286531 RchiOBHm_Chr7g0189141
rosa_laevigata	RLG00000004629 RLG00000010094 RLG00000010095 RLG00000012561 RLG00000012563 RLG00000012564
rosa_multiflora	Rmu_co8365229.1_g000001 Rmu_sc0004628.1_g000001 Rmu_sc0004628.1_g000002 Rmu_sc0004816.1_g000003 Rmu_sc0004816.1_g000004 Rmu_sc0004816.1_g000005 Rmu_sc0004816.1_g000010 Rmu_sc0008916.1_g000002 Rmu_sc0013958.1_g000002
rosa_roxburghii	Rroxscaffold_3G00265750 Rroxscaffold_5G00334410 Rroxscaffold_5G00334420 Rroxscaffold_7G00182230 Rroxscaffold_7G00182240 Rroxscaffold_7G00182250 Rroxscaffold_7G00182270
rosa_rugosa	Rorug03G0313400 Rorug03G0313600 Rorug06G0180400 Rorug06G0180500 Rorug06G0180600 Rorug06G0496200
rosa_samantha	Rh4AG018400 Rh4AG018500 Rh4BG013400 Rh4BG013500 Rh4CG019600 Rh4CG019700 Rh4DG014200 Rh4DG014300 Rh6AG292700 Rh6AG292800 Rh6AG292900 Rh6AG293300 Rh6AG293400 Rh6AG293500 Rh6BG296200 Rh6BG296300 Rh6BG296500 Rh6BG296600 Rh6BG296700 Rh6BG296800 Rh6BG296900 Rh6CG296800 Rh6CG297000 Rh6CG297100 Rh6CG297200 Rh6DG288700 Rh6DG288800 Rh6DG289000 Rh6DG289100 Rh7AG101000 Rh7BG103600 Rh7CG105000 Rh7CG457500 Rh7DG102900
rosa_wichuraiana	Rw4G001210 Rw6G025230 Rw6G025240 Rw6G025250 Rw6G025260 Rw6G025270 Rw6G025540 Rw7G008720

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	445
AciI	CCGC	2 cut(s)	143, 305
AclWI	GGATC	3 cut(s)	188, 201, 470
AcoI	YGGCCR	1 cut(s)	501
AfaI	GTAC	3 cut(s)	91, 372, 539
AflIII	ACRYGT	1 cut(s)	237
AgsI	TTSAA	1 cut(s)	430
AjiI	CACGTC	1 cut(s)	238
AjuI	GAANNNNNNNTTGG	2 cut(s)	482, 514
AluBI	AGCT	6 cut(s)	39, 56, 120, 209, 484, 521
AluI	AGCT	6 cut(s)	39, 56, 120, 209, 484, 521
Alw21I	GWGCWC	1 cut(s)	486
AlwI	GGATC	3 cut(s)	188, 201, 470
AoxI	GGCC	3 cut(s)	361, 501, 525
ApeKI	GCWGC	3 cut(s)	5, 56, 206
AspS9I	GGNCC	2 cut(s)	254, 362
AsuC2I	CCSGG	1 cut(s)	366
AvaII	GGWCC	1 cut(s)	254
BaeGI	GKGCMC	1 cut(s)	556
BalI	TGGCCA	1 cut(s)	503
BamHI	GGATCC	1 cut(s)	193
BanII	GRGCYC	1 cut(s)	486
Bbv12I	GWGCWC	1 cut(s)	486
BbvI	GCAGC	2 cut(s)	43, 218
BccI	CCATC	2 cut(s)	143, 226
BceAI	ACGGC	2 cut(s)	292, 376
BcnI	CCSGG	1 cut(s)	366
BfaI	CTAG	2 cut(s)	102, 557
BfmI	CTRYAG	2 cut(s)	57, 204
BisI	GCNGC	4 cut(s)	6, 57, 207, 306
BlsI	GCNGC	4 cut(s)	7, 58, 208, 307
Bme1390I	CCNGG	1 cut(s)	366
Bme18I	GGWCC	1 cut(s)	254
BmgBI	CACGTC	1 cut(s)	238
BmgT120I	GGNCC	2 cut(s)	254, 362
BmiI	GGNNCC	3 cut(s)	195, 364, 420
BmrFI	CCNGG	1 cut(s)	366
BmsI	GCATC	2 cut(s)	419, 466
BpuMI	CCSGG	1 cut(s)	366
BsaJI	CCNNGG	6 cut(s)	31, 83, 364, 414, 441, 471
BsaWI	WCCGGW	1 cut(s)	262
BsaXI	ACNNNNNCTCC	2 cut(s)	426, 456
Bse118I	RCCGGY	1 cut(s)	545
Bse3DI	GCAATG	2 cut(s)	42, 294
BseDI	CCNNGG	6 cut(s)	31, 83, 364, 414, 441, 471
BseGI	GGATG	3 cut(s)	154, 410, 481
BseMI	GCAATG	2 cut(s)	42, 294
BseMII	CTCAG	3 cut(s)	139, 362, 525
BseSI	GKGCMC	1 cut(s)	556
BseXI	GCAGC	2 cut(s)	43, 218
BseYI	CCCAGC	1 cut(s)	198
BshFI	GGCC	3 cut(s)	363, 503, 527
BsiHKAI	GWGCWC	1 cut(s)	486
BsiSI	CCGG	4 cut(s)	98, 263, 366, 546
BsmI	GAATGC	1 cut(s)	245
BsnI	GGCC	3 cut(s)	363, 503, 527
Bsp1286I	GDGCHC	2 cut(s)	486, 556
Bsp143I	GATC	3 cut(s)	71, 193, 462
BspACI	CCGC	2 cut(s)	143, 305
BspANI	GGCC	3 cut(s)	363, 503, 527
BspCNI	CTCAG	3 cut(s)	138, 361, 526
BspLI	GGNNCC	3 cut(s)	195, 364, 420
BspMAI	CTGCAG	2 cut(s)	61, 208
BspPI	GGATC	3 cut(s)	188, 201, 470
BsrDI	GCAATG	2 cut(s)	42, 294
BsrFI	RCCGGY	1 cut(s)	545
BssAI	RCCGGY	1 cut(s)	545
BssECI	CCNNGG	6 cut(s)	31, 83, 364, 414, 441, 471
BssMI	GATC	3 cut(s)	71, 193, 462
BssT1I	CCWWGG	2 cut(s)	31, 414
Bst4CI	ACNGT	3 cut(s)	94, 175, 442
BstAPI	GCANNNNNTGC	1 cut(s)	14
BstC8I	GCNNGC	4 cut(s)	61, 204, 281, 285
BstDEI	CTNAG	3 cut(s)	125, 348, 534
BstDSI	CCRYGG	2 cut(s)	83, 441
BstF5I	GGATG	3 cut(s)	154, 410, 481
BstKTI	GATC	3 cut(s)	74, 196, 465
BstMBI	GATC	3 cut(s)	71, 193, 462
BstMWI	GCNNNNNNNGC	4 cut(s)	14, 53, 107, 311
BstSCI	CCNGG	1 cut(s)	364
BstSFI	CTRYAG	2 cut(s)	57, 204
BstSLI	GKGCMC	1 cut(s)	556
BstV1I	GCAGC	2 cut(s)	43, 218
BstX2I	RGATCY	2 cut(s)	193, 462
BstYI	RGATCY	2 cut(s)	193, 462
BsuRI	GGCC	3 cut(s)	363, 503, 527
BtgI	CCRYGG	2 cut(s)	83, 441
BtrI	CACGTC	1 cut(s)	238
BtsCI	GGATG	3 cut(s)	154, 410, 481
BtsI	GCAGTG	1 cut(s)	556
BtsIMutI	CAGTG	4 cut(s)	74, 256, 531, 556
Cac8I	GCNNGC	4 cut(s)	61, 204, 281, 285
Cfr10I	RCCGGY	1 cut(s)	545
Cfr13I	GGNCC	2 cut(s)	254, 362
Csp6I	GTAC	3 cut(s)	90, 371, 538
CviAII	CATG	2 cut(s)	505, 541
CviQI	GTAC	3 cut(s)	90, 371, 538
DdeI	CTNAG	3 cut(s)	125, 348, 534
DpnI	GATC	3 cut(s)	73, 195, 464
DpnII	GATC	3 cut(s)	71, 193, 462
DrdI	GACNNNNNNGTC	1 cut(s)	445
DseDI	GACNNNNNNGTC	1 cut(s)	445
EaeI	YGGCCR	1 cut(s)	501
EciI	GGCGGA	1 cut(s)	158
Ecl136II	GAGCTC	1 cut(s)	484
Eco130I	CCWWGG	2 cut(s)	31, 414
Eco24I	GRGCYC	1 cut(s)	486
Eco32I	GATATC	1 cut(s)	354
Eco47I	GGWCC	1 cut(s)	254
Eco53kI	GAGCTC	1 cut(s)	484
EcoICRI	GAGCTC	1 cut(s)	484
EcoRV	GATATC	1 cut(s)	354
EcoT14I	CCWWGG	2 cut(s)	31, 414
EcoT38I	GRGCYC	1 cut(s)	486
ErhI	CCWWGG	2 cut(s)	31, 414
FaeI	CATG	2 cut(s)	508, 544
FaiI	YATR	4 cut(s)	20, 108, 506, 542
FatI	CATG	2 cut(s)	504, 540
Fnu4HI	GCNGC	4 cut(s)	6, 57, 207, 306
FokI	GGATG	3 cut(s)	161, 397, 488
FriOI	GRGCYC	1 cut(s)	486
Fsp4HI	GCNGC	4 cut(s)	6, 57, 207, 306
FspBI	CTAG	2 cut(s)	102, 557
GluI	GCNGC	4 cut(s)	6, 57, 207, 306
GsaI	CCCAGC	1 cut(s)	202
HaeIII	GGCC	3 cut(s)	363, 503, 527
HapII	CCGG	4 cut(s)	98, 263, 366, 546
Hin1II	CATG	2 cut(s)	508, 544
HinfI	GANTC	2 cut(s)	270, 446
HpaII	CCGG	4 cut(s)	98, 263, 366, 546
Hpy166II	GTNNAC	1 cut(s)	254
Hpy188I	TCNGA	4 cut(s)	235, 351, 457, 475
Hpy188III	TCNNGA	1 cut(s)	487
Hpy8I	GTNNAC	1 cut(s)	254
Hpy99I	CGWCG	1 cut(s)	461
HpyAV	CCTTC	2 cut(s)	489, 538
HpyCH4III	ACNGT	3 cut(s)	94, 175, 442
HpyCH4IV	ACGT	1 cut(s)	237
HpyCH4V	TGCA	7 cut(s)	8, 22, 59, 110, 206, 245, 479
HpyF10VI	GCNNNNNNNGC	4 cut(s)	14, 53, 107, 311
HpyF3I	CTNAG	3 cut(s)	125, 348, 534
HpySE526I	ACGT	1 cut(s)	237
Hsp92II	CATG	2 cut(s)	508, 544
Kzo9I	GATC	3 cut(s)	71, 193, 462
LmnI	GCTCC	2 cut(s)	44, 53
Lsp1109I	GCAGC	2 cut(s)	43, 218
LweI	GCATC	2 cut(s)	419, 466
MaeI	CTAG	2 cut(s)	102, 557
MaeII	ACGT	1 cut(s)	237
MaeIII	GTNAC	2 cut(s)	175, 436
MalI	GATC	3 cut(s)	73, 195, 464
MboI	GATC	3 cut(s)	71, 193, 462
MflI	RGATCY	2 cut(s)	193, 462
MhlI	GDGCHC	2 cut(s)	486, 556
MlsI	TGGCCA	1 cut(s)	503
MluNI	TGGCCA	1 cut(s)	503
MlyI	GAGTC	1 cut(s)	455
MmeI	TCCRAC	2 cut(s)	381, 480
MnlI	CCTC	4 cut(s)	139, 196, 432, 481
Mox20I	TGGCCA	1 cut(s)	503
MscI	TGGCCA	1 cut(s)	503
Msp20I	TGGCCA	1 cut(s)	503
MspI	CCGG	4 cut(s)	98, 263, 366, 546
MspR9I	CCNGG	1 cut(s)	366
Mva1269I	GAATGC	1 cut(s)	245
MwoI	GCNNNNNNNGC	4 cut(s)	14, 53, 107, 311
NciI	CCSGG	1 cut(s)	366
NdeII	GATC	3 cut(s)	71, 193, 462
NlaIII	CATG	2 cut(s)	508, 544
NlaIV	GGNNCC	3 cut(s)	195, 364, 420
NmuCI	GTSAC	1 cut(s)	436
PctI	GAATGC	1 cut(s)	245
PfeI	GAWTC	1 cut(s)	270
PkrI	GCNGC	4 cut(s)	7, 58, 208, 307
PleI	GAGTC	1 cut(s)	454
PpsI	GAGTC	1 cut(s)	454
Psp124BI	GAGCTC	1 cut(s)	486
PspFI	CCCAGC	1 cut(s)	198
PspN4I	GGNNCC	3 cut(s)	195, 364, 420
PspPI	GGNCC	2 cut(s)	254, 362
PstI	CTGCAG	2 cut(s)	61, 208
PsuI	RGATCY	2 cut(s)	193, 462
RsaI	GTAC	3 cut(s)	91, 372, 539
RsaNI	GTAC	3 cut(s)	90, 371, 538
SacI	GAGCTC	1 cut(s)	486
SatI	GCNGC	4 cut(s)	6, 57, 207, 306
Sau3AI	GATC	3 cut(s)	71, 193, 462
Sau96I	GGNCC	2 cut(s)	254, 362
SchI	GAGTC	1 cut(s)	455
ScrFI	CCNGG	1 cut(s)	366
SduI	GDGCHC	2 cut(s)	486, 556
SfaNI	GCATC	2 cut(s)	419, 466
SfcI	CTRYAG	2 cut(s)	57, 204
SinI	GGWCC	1 cut(s)	254
SsiI	CCGC	2 cut(s)	143, 305
SspMI	CTAG	2 cut(s)	102, 557
SstI	GAGCTC	1 cut(s)	486
StyD4I	CCNGG	1 cut(s)	364
StyI	CCWWGG	2 cut(s)	31, 414
TaaI	ACNGT	3 cut(s)	94, 175, 442
TaiI	ACGT	1 cut(s)	240
TaqI	TCGA	2 cut(s)	116, 318
TatI	WGTACW	1 cut(s)	537
TauI	GCSGC	1 cut(s)	308
TfiI	GAWTC	1 cut(s)	270
TscAI	CASTG	4 cut(s)	81, 256, 538, 556
TseFI	GTSAC	1 cut(s)	436
TseI	GCWGC	3 cut(s)	5, 56, 206
Tsp45I	GTSAC	1 cut(s)	436
TspDTI	ATGAA	1 cut(s)	370
TspGWI	ACGGA	2 cut(s)	66, 100
TspRI	CASTG	4 cut(s)	81, 256, 538, 556
VpaK11BI	GGWCC	1 cut(s)	254
XspI	CTAG	2 cut(s)	102, 557

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