Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0000396

Physical Location & Seq

Genomic Coordinates Reverse (-)

2252462 .. 2254055

Gene Structure 1594 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG014300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 594 bp

ATGGCTGCTTCAGCTACCATGCAATCAGTATTCCTTGCAAATTCCGTTGTATATGGAGCAGGAAAGAACAGGTCCTCGTTGCCTATTCAATTTGCACCAACTCTTCGTAGGTACCCTAACATGAGGGTACGCTCCATGGCTGAGAATGATCTACCTGAGGAGAAACCATCTACAGTTTCAGAACCATCGAAGGTTCCACCACAAGCACCTAGACCTACAGCTGTCCCACCACCACCTAGGACTCCCAAGGTTAGCACCAAGTTTGGGGACGTTTTCGCCTTCAGCGGTCCAGCACCGGAGAGAATCAACGGCAGACTCGCAATGGTGGGCTTTGTTTCAGCTCTTGCAGTGGAACTGTTAAAGGGCCAGGATGTGTTTTCTCAGATCTCCGACGGGGGAGTCGCTCTGTTCCTTGGCACTAGCATTTTGCTGTCAGTTGCATCCTTGATTCCTCTATTTCAAGGAGTCAGCGTGGAGTCAAAATCAGAGGGGCTCATGACCTCAGATGCTGAGTTGTGGAATGGAAGATTGGCTATGTTAGGTTTGGTGGCTTTGGCTTTCACCGAGTATGTCAAGGGTGGAACCCTAATTTAA

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

197

Amino Acids

20.85

Weight (kDa)

9.34

Isoelectric Point (pI)

43.58

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Chloroa_b-bind	PF00504	98 - 189	1.3e-09	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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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)	398
Acc65I	GGTACC	1 cut(s)	111
AccB1I	GGYRCC	1 cut(s)	111
AciI	CCGC	1 cut(s)	285
AcsI	RAATTY	1 cut(s)	40
AcuI	CTGAAG	1 cut(s)	265
AfaI	GTAC	2 cut(s)	113, 129
AfiI	CCNNNNNNNGG	1 cut(s)	264
AgsI	TTSAA	2 cut(s)	89, 461
AjnI	CCWGG	1 cut(s)	366
AjuI	GAANNNNNNNTTGG	2 cut(s)	512, 544
AluBI	AGCT	3 cut(s)	14, 221, 341
AluI	AGCT	3 cut(s)	14, 221, 341
AlwNI	CAGNNNCTG	1 cut(s)	509
AoxI	GGCC	1 cut(s)	364
ApeKI	GCWGC	1 cut(s)	5
ApoI	RAATTY	1 cut(s)	40
Asp718I	GGTACC	1 cut(s)	111
AspA2I	CCTAGG	1 cut(s)	236
AspS9I	GGNCC	3 cut(s)	72, 287, 364
AsuHPI	GGTGA	1 cut(s)	553
AvaII	GGWCC	2 cut(s)	72, 287
AvrII	CCTAGG	1 cut(s)	236
AxyI	CCTNAGG	1 cut(s)	156
BanI	GGYRCC	1 cut(s)	111
BanII	GRGCYC	1 cut(s)	495
BccI	CCATC	2 cut(s)	175, 193
BceAI	ACGGC	1 cut(s)	325
BciT130I	CCWGG	1 cut(s)	368
BfaI	CTAG	3 cut(s)	210, 237, 420
BfmI	CTRYAG	2 cut(s)	171, 216
BglII	AGATCT	1 cut(s)	384
BisI	GCNGC	1 cut(s)	6
BlnI	CCTAGG	1 cut(s)	236
BlsI	GCNGC	1 cut(s)	7
Bme1390I	CCNGG	1 cut(s)	368
Bme18I	GGWCC	2 cut(s)	72, 287
BmgT120I	GGNCC	3 cut(s)	72, 287, 364
BmiI	GGNNCC	3 cut(s)	113, 195, 583
BmrFI	CCNGG	1 cut(s)	368
BmsI	GCATC	2 cut(s)	449, 496
BsaJI	CCNNGG	4 cut(s)	135, 236, 246, 412
BsaWI	WCCGGW	1 cut(s)	295
BsaXI	ACNNNNNCTCC	2 cut(s)	456, 486
Bsc4I	CCNNNNNNNGG	1 cut(s)	264
Bse21I	CCTNAGG	1 cut(s)	156
Bse3DI	GCAATG	1 cut(s)	327
BseBI	CCWGG	1 cut(s)	368
BseDI	CCNNGG	4 cut(s)	135, 236, 246, 412
BseGI	GGATG	2 cut(s)	376, 440
BseLI	CCNNNNNNNGG	1 cut(s)	264
BseMI	GCAATG	1 cut(s)	327
BseMII	CTCAG	5 cut(s)	132, 147, 395, 501, 516
BseRI	GAGGAG	1 cut(s)	173
BshFI	GGCC	1 cut(s)	366
BshNI	GGYRCC	1 cut(s)	111
BsiSI	CCGG	1 cut(s)	296
BslFI	GGGAC	2 cut(s)	209, 281
BslI	CCNNNNNNNGG	1 cut(s)	264
BsmFI	GGGAC	2 cut(s)	209, 281
BsnI	GGCC	1 cut(s)	366
Bsp1286I	GDGCHC	1 cut(s)	495
Bsp143I	GATC	2 cut(s)	148, 384
Bsp19I	CCATGG	1 cut(s)	135
BspACI	CCGC	1 cut(s)	285
BspANI	GGCC	1 cut(s)	366
BspCNI	CTCAG	5 cut(s)	133, 148, 394, 502, 515
BspHI	TCATGA	1 cut(s)	495
BspLI	GGNNCC	3 cut(s)	113, 195, 583
BspT107I	GGYRCC	1 cut(s)	111
BsrDI	GCAATG	1 cut(s)	327
BssECI	CCNNGG	4 cut(s)	135, 236, 246, 412
BssMI	GATC	2 cut(s)	148, 384
BssT1I	CCWWGG	4 cut(s)	135, 236, 246, 412
Bst2UI	CCWGG	1 cut(s)	368
Bst4CI	ACNGT	2 cut(s)	175, 357
Bst6I	CTCTTC	1 cut(s)	108
BstDEI	CTNAG	5 cut(s)	141, 156, 381, 502, 510
BstDSI	CCRYGG	1 cut(s)	135
BstF5I	GGATG	2 cut(s)	376, 440
BstKTI	GATC	2 cut(s)	151, 387
BstMBI	GATC	2 cut(s)	148, 384
BstMWI	GCNNNNNNNGC	1 cut(s)	11
BstNI	CCWGG	1 cut(s)	368
BstSCI	CCNGG	1 cut(s)	366
BstSFI	CTRYAG	2 cut(s)	171, 216
BstX2I	RGATCY	1 cut(s)	384
BstYI	RGATCY	1 cut(s)	384
Bsu36I	CCTNAGG	1 cut(s)	156
BsuRI	GGCC	1 cut(s)	366
BtgI	CCRYGG	1 cut(s)	135
BtsCI	GGATG	2 cut(s)	376, 440
BtsI	GCAGTG	1 cut(s)	354
BtsIMutI	CAGTG	1 cut(s)	354
CaiI	CAGNNNCTG	1 cut(s)	509
CciI	TCATGA	1 cut(s)	495
Cfr13I	GGNCC	3 cut(s)	72, 287, 364
Csp6I	GTAC	2 cut(s)	112, 128
CviAII	CATG	4 cut(s)	19, 121, 136, 496
CviQI	GTAC	2 cut(s)	112, 128
DdeI	CTNAG	5 cut(s)	141, 156, 381, 502, 510
DpnI	GATC	2 cut(s)	150, 386
DpnII	GATC	2 cut(s)	148, 384
DrdI	GACNNNNNNGTC	1 cut(s)	398
DseDI	GACNNNNNNGTC	1 cut(s)	398
Eam1104I	CTCTTC	1 cut(s)	108
EarI	CTCTTC	1 cut(s)	108
Eco130I	CCWWGG	4 cut(s)	135, 236, 246, 412
Eco24I	GRGCYC	1 cut(s)	495
Eco47I	GGWCC	2 cut(s)	72, 287
Eco57I	CTGAAG	1 cut(s)	265
Eco81I	CCTNAGG	1 cut(s)	156
EcoO109I	RGGNCCY	1 cut(s)	72
EcoRII	CCWGG	1 cut(s)	366
EcoT14I	CCWWGG	4 cut(s)	135, 236, 246, 412
EcoT38I	GRGCYC	1 cut(s)	495
ErhI	CCWWGG	4 cut(s)	135, 236, 246, 412
FaeI	CATG	4 cut(s)	22, 124, 139, 499
FaiI	YATR	8 cut(s)	20, 52, 54, 122, 137, 497, 536, 570
FaqI	GGGAC	2 cut(s)	209, 281
FatI	CATG	4 cut(s)	18, 120, 135, 495
Fnu4HI	GCNGC	1 cut(s)	6
FokI	GGATG	2 cut(s)	383, 427
FriOI	GRGCYC	1 cut(s)	495
Fsp4HI	GCNGC	1 cut(s)	6
FspBI	CTAG	3 cut(s)	210, 237, 420
GluI	GCNGC	1 cut(s)	6
HaeIII	GGCC	1 cut(s)	366
HapII	CCGG	1 cut(s)	296
Hin1II	CATG	4 cut(s)	22, 124, 139, 499
HinfI	GANTC	7 cut(s)	241, 303, 315, 399, 448, 465, 476
HpaII	CCGG	1 cut(s)	296
HphI	GGTGA	1 cut(s)	553
Hpy188I	TCNGA	5 cut(s)	181, 384, 391, 487, 505
Hpy188III	TCNNGA	1 cut(s)	496
Hpy99I	CGWCG	1 cut(s)	395
HpyAV	CCTTC	2 cut(s)	184, 289
HpyCH4III	ACNGT	2 cut(s)	175, 357
HpyCH4IV	ACGT	1 cut(s)	270
HpyCH4V	TGCA	5 cut(s)	22, 38, 95, 347, 440
HpyF10VI	GCNNNNNNNGC	1 cut(s)	11
HpyF3I	CTNAG	5 cut(s)	141, 156, 381, 502, 510
HpySE526I	ACGT	1 cut(s)	270
Hsp92II	CATG	4 cut(s)	22, 124, 139, 499
KpnI	GGTACC	1 cut(s)	115
Kzo9I	GATC	2 cut(s)	148, 384
LmnI	GCTCC	2 cut(s)	56, 137
LpnPI	CCDG	7 cut(s)	45, 55, 168, 303, 309, 353, 380
LweI	GCATC	2 cut(s)	449, 496
MaeI	CTAG	3 cut(s)	210, 237, 420
MaeII	ACGT	1 cut(s)	270
MalI	GATC	2 cut(s)	150, 386
MboI	GATC	2 cut(s)	148, 384
MboII	GAAGA	2 cut(s)	95, 537
MflI	RGATCY	1 cut(s)	384
MhlI	GDGCHC	1 cut(s)	495
MluCI	AATT	3 cut(s)	40, 89, 588
MlyI	GAGTC	5 cut(s)	235, 309, 408, 474, 485
MmeI	TCCRAC	1 cut(s)	414
MnlI	CCTC	6 cut(s)	85, 117, 151, 462, 481, 511
MseI	TTAA	2 cut(s)	359, 592
MspA1I	CMGCKG	2 cut(s)	221, 285
MspI	CCGG	1 cut(s)	296
MspR9I	CCNGG	1 cut(s)	368
MvaI	CCWGG	1 cut(s)	368
MwoI	GCNNNNNNNGC	1 cut(s)	11
NcoI	CCATGG	1 cut(s)	135
NdeII	GATC	2 cut(s)	148, 384
NlaIII	CATG	4 cut(s)	22, 124, 139, 499
NlaIV	GGNNCC	3 cut(s)	113, 195, 583
PagI	TCATGA	1 cut(s)	495
PfeI	GAWTC	2 cut(s)	303, 448
PkrI	GCNGC	1 cut(s)	7
PleI	GAGTC	5 cut(s)	235, 309, 407, 473, 484
PpsI	GAGTC	5 cut(s)	235, 309, 407, 473, 484
PpuMI	RGGWCCY	1 cut(s)	72
Psp5II	RGGWCCY	1 cut(s)	72
Psp6I	CCWGG	1 cut(s)	366
PspGI	CCWGG	1 cut(s)	366
PspN4I	GGNNCC	3 cut(s)	113, 195, 583
PspPI	GGNCC	3 cut(s)	72, 287, 364
PspPPI	RGGWCCY	1 cut(s)	72
PstNI	CAGNNNCTG	1 cut(s)	509
PsuI	RGATCY	1 cut(s)	384
PvuII	CAGCTG	1 cut(s)	221
RsaI	GTAC	2 cut(s)	113, 129
RsaNI	GTAC	2 cut(s)	112, 128
SaqAI	TTAA	2 cut(s)	359, 592
SatI	GCNGC	1 cut(s)	6
Sau3AI	GATC	2 cut(s)	148, 384
Sau96I	GGNCC	3 cut(s)	72, 287, 364
SchI	GAGTC	5 cut(s)	235, 309, 408, 474, 485
ScrFI	CCNGG	1 cut(s)	368
SduI	GDGCHC	1 cut(s)	495
SfaNI	GCATC	2 cut(s)	449, 496
SfcI	CTRYAG	2 cut(s)	171, 216
SinI	GGWCC	2 cut(s)	72, 287
Sse9I	AATT	3 cut(s)	40, 89, 588
SsiI	CCGC	1 cut(s)	285
SspMI	CTAG	3 cut(s)	210, 237, 420
StyD4I	CCNGG	1 cut(s)	366
StyI	CCWWGG	4 cut(s)	135, 236, 246, 412
TaaI	ACNGT	2 cut(s)	175, 357
TaiI	ACGT	1 cut(s)	273
TaqI	TCGA	1 cut(s)	188
TasI	AATT	3 cut(s)	40, 89, 588
TfiI	GAWTC	2 cut(s)	303, 448
Tru1I	TTAA	2 cut(s)	359, 592
Tru9I	TTAA	2 cut(s)	359, 592
TscAI	CASTG	1 cut(s)	354
TseI	GCWGC	1 cut(s)	5
TspGWI	ACGGA	1 cut(s)	34
TspRI	CASTG	1 cut(s)	354
VpaK11BI	GGWCC	2 cut(s)	72, 287
XapI	RAATTY	1 cut(s)	40
XmaJI	CCTAGG	1 cut(s)	236
XspI	CTAG	3 cut(s)	210, 237, 420

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