Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0000396

Physical Location & Seq

Genomic Coordinates Reverse (-)

48712116 .. 48712816

Gene Structure 701 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG288800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 582 bp

ATGGATGCAACAACTGCTATGCAATCAATCCTTGGAAGCTCCATTACTTGCGAAGCTGCAGGCAAGAACAGATCTCTGAACCTACAGAGTACTGTTCCTGCTAGTTATGCAGTTTCAAGCTATCTCCGCGTGCGCTCTATGGCCGAGGGTGGTCAAAAGAAGCAACCAACAACTGTAACAAAAGCCTCAAAGAATCCACAGCCAGCTGCAACTCCTTCACCTTCACCTCCTCCCCCTTCTCCTAAGTTTTCGGAGGTGTTTGCATTCAGTGGACTAGCTCCAGAGAGAATCAACGGCAGGCTGGCAATGGTGGGCTTCGTTGCCGCTCTGGCAGTTGAACTATCTAAGGGACAAGATGTGTTTGCTCAGATATCCAATGGCTCCGGAGTCCCATTGTTCATCGGCACAAGTGTTTTGCTATCAGTGGCATCCTTGGTTCCTCTATTGAAAGGAGTGAGCGTGAAGTCCAAATCCGACGGGATCATGACCTCAGAGGCAGAGCTCATAAATGGATGGTTGGCCATGTTGGGTCTTGTAGCTTTGGCCTTCACCGAATATGTGACTGGTCGAACCCTAGTGTAG

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

193

Amino Acids

19.96

Weight (kDa)

9.52

Isoelectric Point (pI)

48.86

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Chloroa_b-bind	PF00504	93 - 185	1.8e-06	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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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)
AccBSI	CCGCTC	1 cut(s)	326
AccII	CGCG	1 cut(s)	129
AccIII	TCCGGA	1 cut(s)	383
AciI	CCGC	2 cut(s)	127, 324
AclWI	GGATC	1 cut(s)	488
AcoI	YGGCCR	2 cut(s)	141, 519
AfaI	GTAC	1 cut(s)	91
AgsI	TTSAA	3 cut(s)	117, 338, 448
AluBI	AGCT	7 cut(s)	39, 56, 120, 206, 278, 502, 539
AluI	AGCT	7 cut(s)	39, 56, 120, 206, 278, 502, 539
Alw21I	GWGCWC	1 cut(s)	504
AlwI	GGATC	1 cut(s)	488
Aor13HI	TCCGGA	1 cut(s)	383
AoxI	GGCC	3 cut(s)	141, 519, 543
ApeKI	GCWGC	2 cut(s)	56, 206
AspLEI	GCGC	1 cut(s)	135
AsuHPI	GGTGA	3 cut(s)	210, 216, 541
BalI	TGGCCA	1 cut(s)	521
BanII	GRGCYC	1 cut(s)	504
BarI	GAAGNNNNNNTAC	2 cut(s)	28, 60
Bbv12I	GWGCWC	1 cut(s)	504
BbvI	GCAGC	2 cut(s)	43, 193
BccI	CCATC	1 cut(s)	507
BceAI	ACGGC	1 cut(s)	310
BfaI	CTAG	3 cut(s)	102, 275, 575
BfmI	CTRYAG	2 cut(s)	57, 83
BglI	GCCNNNNNGGC	1 cut(s)	329
BglII	AGATCT	1 cut(s)	71
BisI	GCNGC	3 cut(s)	57, 207, 324
BlsI	GCNGC	3 cut(s)	58, 208, 325
BmcAI	AGTACT	1 cut(s)	91
BmiI	GGNNCC	2 cut(s)	382, 438
BmsI	GCATC	1 cut(s)	437
BpmI	CTGGAG	1 cut(s)	264
BsaJI	CCNNGG	3 cut(s)	31, 144, 432
BsaWI	WCCGGW	1 cut(s)	383
BsaXI	ACNNNNNCTCC	2 cut(s)	444, 474
Bse1I	ACTGG	1 cut(s)	568
Bse3DI	GCAATG	1 cut(s)	312
BseAI	TCCGGA	1 cut(s)	383
BseDI	CCNNGG	3 cut(s)	31, 144, 432
BseGI	GGATG	3 cut(s)	10, 428, 518
BseMI	GCAATG	1 cut(s)	312
BseMII	CTCAG	2 cut(s)	380, 504
BseNI	ACTGG	1 cut(s)	568
BseRI	GAGGAG	1 cut(s)	219
BseXI	GCAGC	2 cut(s)	43, 193
Bsh1236I	CGCG	1 cut(s)	129
BshFI	GGCC	3 cut(s)	143, 521, 545
BsiHKAI	GWGCWC	1 cut(s)	504
BsiSI	CCGG	1 cut(s)	384
BslFI	GGGAC	2 cut(s)	363, 374
BsmFI	GGGAC	2 cut(s)	363, 374
BsmI	GAATGC	1 cut(s)	263
BsnI	GGCC	3 cut(s)	143, 521, 545
Bsp1286I	GDGCHC	1 cut(s)	504
Bsp13I	TCCGGA	1 cut(s)	383
Bsp143I	GATC	2 cut(s)	71, 480
BspACI	CCGC	2 cut(s)	127, 324
BspANI	GGCC	3 cut(s)	143, 521, 545
BspCNI	CTCAG	2 cut(s)	379, 503
BspEI	TCCGGA	1 cut(s)	383
BspFNI	CGCG	1 cut(s)	129
BspHI	TCATGA	1 cut(s)	483
BspLI	GGNNCC	2 cut(s)	382, 438
BspMAI	CTGCAG	1 cut(s)	61
BspPI	GGATC	1 cut(s)	488
BsrBI	CCGCTC	1 cut(s)	326
BsrDI	GCAATG	1 cut(s)	312
BsrI	ACTGG	1 cut(s)	568
BssECI	CCNNGG	3 cut(s)	31, 144, 432
BssMI	GATC	2 cut(s)	71, 480
BssT1I	CCWWGG	2 cut(s)	31, 432
Bst4CI	ACNGT	2 cut(s)	94, 175
BstAPI	GCANNNNNTGC	1 cut(s)	14
BstC8I	GCNNGC	5 cut(s)	61, 131, 204, 299, 303
BstDEI	CTNAG	4 cut(s)	243, 345, 366, 490
BstF5I	GGATG	3 cut(s)	10, 428, 518
BstFNI	CGCG	1 cut(s)	129
BstHHI	GCGC	1 cut(s)	135
BstKTI	GATC	2 cut(s)	74, 483
BstMBI	GATC	2 cut(s)	71, 480
BstMWI	GCNNNNNNNGC	4 cut(s)	14, 107, 126, 329
BstSFI	CTRYAG	2 cut(s)	57, 83
BstUI	CGCG	1 cut(s)	129
BstV1I	GCAGC	2 cut(s)	43, 193
BstX2I	RGATCY	1 cut(s)	71
BstYI	RGATCY	1 cut(s)	71
BsuRI	GGCC	3 cut(s)	143, 521, 545
BtsCI	GGATG	3 cut(s)	10, 428, 518
BtsIMutI	CAGTG	2 cut(s)	274, 429
Cac8I	GCNNGC	5 cut(s)	61, 131, 204, 299, 303
CciI	TCATGA	1 cut(s)	483
CfoI	GCGC	1 cut(s)	135
Csp6I	GTAC	1 cut(s)	90
CviAII	CATG	2 cut(s)	484, 523
CviQI	GTAC	1 cut(s)	90
DdeI	CTNAG	4 cut(s)	243, 345, 366, 490
DpnI	GATC	2 cut(s)	73, 482
DpnII	GATC	2 cut(s)	71, 480
EaeI	YGGCCR	2 cut(s)	141, 519
Ecl136II	GAGCTC	1 cut(s)	502
Eco130I	CCWWGG	2 cut(s)	31, 432
Eco24I	GRGCYC	1 cut(s)	504
Eco32I	GATATC	1 cut(s)	372
Eco53kI	GAGCTC	1 cut(s)	502
EcoICRI	GAGCTC	1 cut(s)	502
EcoRV	GATATC	1 cut(s)	372
EcoT14I	CCWWGG	2 cut(s)	31, 432
EcoT38I	GRGCYC	1 cut(s)	504
ErhI	CCWWGG	2 cut(s)	31, 432
FaeI	CATG	2 cut(s)	487, 526
FaiI	YATR	7 cut(s)	20, 108, 140, 485, 506, 524, 558
FaqI	GGGAC	2 cut(s)	363, 374
FatI	CATG	2 cut(s)	483, 522
Fnu4HI	GCNGC	3 cut(s)	57, 207, 324
FokI	GGATG	3 cut(s)	17, 415, 525
FriOI	GRGCYC	1 cut(s)	504
Fsp4HI	GCNGC	3 cut(s)	57, 207, 324
FspBI	CTAG	3 cut(s)	102, 275, 575
GlaI	GCGC	1 cut(s)	134
GluI	GCNGC	3 cut(s)	57, 207, 324
GsuI	CTGGAG	1 cut(s)	264
HaeIII	GGCC	3 cut(s)	143, 521, 545
HapII	CCGG	1 cut(s)	384
HhaI	GCGC	1 cut(s)	135
Hin1II	CATG	2 cut(s)	487, 526
Hin6I	GCGC	1 cut(s)	133
HinP1I	GCGC	1 cut(s)	133
HinfI	GANTC	3 cut(s)	193, 288, 387
HpaII	CCGG	1 cut(s)	384
HphI	GGTGA	3 cut(s)	210, 216, 541
Hpy166II	GTNNAC	1 cut(s)	272
Hpy188I	TCNGA	5 cut(s)	78, 253, 369, 475, 493
Hpy188III	TCNNGA	3 cut(s)	281, 384, 484
Hpy8I	GTNNAC	1 cut(s)	272
Hpy99I	CGWCG	1 cut(s)	479
HpyAV	CCTTC	4 cut(s)	225, 231, 246, 556
HpyCH4III	ACNGT	2 cut(s)	94, 175
HpyCH4V	TGCA	6 cut(s)	8, 22, 59, 110, 209, 263
HpyF10VI	GCNNNNNNNGC	4 cut(s)	14, 107, 126, 329
HpyF3I	CTNAG	4 cut(s)	243, 345, 366, 490
Hsp92II	CATG	2 cut(s)	487, 526
HspAI	GCGC	1 cut(s)	133
Kpn2I	TCCGGA	1 cut(s)	383
Kzo9I	GATC	2 cut(s)	71, 480
LmnI	GCTCC	3 cut(s)	44, 283, 386
LpnPI	CCDG	9 cut(s)	45, 111, 216, 283, 287, 294, 314, 397, 549
Lsp1109I	GCAGC	2 cut(s)	43, 193
LweI	GCATC	1 cut(s)	437
MaeI	CTAG	3 cut(s)	102, 275, 575
MaeIII	GTNAC	2 cut(s)	175, 559
MalI	GATC	2 cut(s)	73, 482
MbiI	CCGCTC	1 cut(s)	326
MboI	GATC	2 cut(s)	71, 480
MflI	RGATCY	1 cut(s)	71
MhlI	GDGCHC	1 cut(s)	504
MlsI	TGGCCA	1 cut(s)	521
MluNI	TGGCCA	1 cut(s)	521
MlyI	GAGTC	1 cut(s)	396
MmeI	TCCRAC	1 cut(s)	498
MnlI	CCTC	8 cut(s)	139, 196, 237, 240, 247, 450, 487, 499
Mox20I	TGGCCA	1 cut(s)	521
MroI	TCCGGA	1 cut(s)	383
MscI	TGGCCA	1 cut(s)	521
Msp20I	TGGCCA	1 cut(s)	521
MspA1I	CMGCKG	1 cut(s)	206
MspI	CCGG	1 cut(s)	384
Mva1269I	GAATGC	1 cut(s)	263
MvnI	CGCG	1 cut(s)	129
MwoI	GCNNNNNNNGC	4 cut(s)	14, 107, 126, 329
NdeII	GATC	2 cut(s)	71, 480
NlaIII	CATG	2 cut(s)	487, 526
NlaIV	GGNNCC	2 cut(s)	382, 438
NmeAIII	GCCGAG	1 cut(s)	169
NmuCI	GTSAC	1 cut(s)	559
PagI	TCATGA	1 cut(s)	483
PctI	GAATGC	1 cut(s)	263
PfeI	GAWTC	2 cut(s)	193, 288
PkrI	GCNGC	3 cut(s)	58, 208, 325
PleI	GAGTC	1 cut(s)	395
PpsI	GAGTC	1 cut(s)	395
Psp124BI	GAGCTC	1 cut(s)	504
PspN4I	GGNNCC	2 cut(s)	382, 438
PstI	CTGCAG	1 cut(s)	61
PsuI	RGATCY	1 cut(s)	71
PvuII	CAGCTG	1 cut(s)	206
RsaI	GTAC	1 cut(s)	91
RsaNI	GTAC	1 cut(s)	90
SacI	GAGCTC	1 cut(s)	504
SatI	GCNGC	3 cut(s)	57, 207, 324
Sau3AI	GATC	2 cut(s)	71, 480
ScaI	AGTACT	1 cut(s)	91
SchI	GAGTC	1 cut(s)	396
SduI	GDGCHC	1 cut(s)	504
SfaNI	GCATC	1 cut(s)	437
SfcI	CTRYAG	2 cut(s)	57, 83
SsiI	CCGC	2 cut(s)	127, 324
SspMI	CTAG	3 cut(s)	102, 275, 575
SstI	GAGCTC	1 cut(s)	504
StyI	CCWWGG	2 cut(s)	31, 432
TaaI	ACNGT	2 cut(s)	94, 175
TaqI	TCGA	1 cut(s)	568
TatI	WGTACW	1 cut(s)	89
TauI	GCSGC	1 cut(s)	326
TfiI	GAWTC	2 cut(s)	193, 288
TscAI	CASTG	2 cut(s)	274, 429
TseFI	GTSAC	1 cut(s)	559
TseI	GCWGC	2 cut(s)	56, 206
Tsp45I	GTSAC	1 cut(s)	559
TspDTI	ATGAA	1 cut(s)	388
TspRI	CASTG	2 cut(s)	274, 429
XspI	CTAG	3 cut(s)	102, 275, 575
ZrmI	AGTACT	1 cut(s)	91

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