Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0000396

Physical Location & Seq

Genomic Coordinates Reverse (-)

48990355 .. 48991104

Gene Structure 750 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG292900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 588 bp

ATGGCTGCAACATCCACTATGCAATCAATCCTTGGAAGCTCTGTCGCTTATGGAACAGTTGCAGGCAAGAACAGATCTCTGAACCTGCAGAGTACTCCTCCTGCTGCTAGTTATGCAGTTTCAAGCTATCTCAGGGTTCGCTCTATGGCAGAGGATGGTCAAAAGAAGCAACCAACAGCTGTAACAAAAGCCTCAAAGAATCCACAGCCTGCAGCCCCTTCACCATCTCCTCCTCCTCCTCCTTCTCCGAAGTTTTCAGACGTGTTTGCATTCAACGGGCCGGCACCTGAGAGAATCAACGGCAGGCTGGCAATGGTGGGCTTCGTTGCGGCTCTAGCTGTCGAACTCTCCAAGGGGCAAGATGTGTTTGCTCAGATATCCAACGGCCCCGGAGTACCATTGTTCATCGGCACAAGTATTTTGCTATCAGTAGCATCCTTGGTTCCTCTATTGAAAGGAGTGACCGTGGAGTCCAAATCCGACGGGATCTTTACCTCGGATGCAGAGCTCTGGAATGGAAGGTTGGCCATGTTGGGTCTTGTAGCTTTAGCCTTCACCGAGTACGTGACCGGCAGTGCCCTAGTGTAG

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

195

Amino Acids

20.08

Weight (kDa)

9.47

Isoelectric Point (pI)

51.21

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Chloroa_b-bind	PF00504	95 - 187	8.6e-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)

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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)
AasI	GACNNNNNNGTC	1 cut(s)	469
Acc36I	ACCTGC	1 cut(s)	93
AccB1I	GGYRCC	1 cut(s)	283
AciI	CCGC	1 cut(s)	329
AclWI	GGATC	1 cut(s)	494
AcoI	YGGCCR	1 cut(s)	525
AfaI	GTAC	3 cut(s)	94, 396, 563
AflIII	ACRYGT	1 cut(s)	261
AgsI	TTSAA	3 cut(s)	123, 274, 454
AjiI	CACGTC	1 cut(s)	262
AjuI	GAANNNNNNNTTGG	2 cut(s)	506, 538
AluBI	AGCT	6 cut(s)	39, 126, 179, 338, 508, 545
AluI	AGCT	6 cut(s)	39, 126, 179, 338, 508, 545
Alw21I	GWGCWC	1 cut(s)	510
AlwI	GGATC	1 cut(s)	494
AoxI	GGCC	3 cut(s)	278, 385, 525
ApeKI	GCWGC	3 cut(s)	5, 104, 212
AspS9I	GGNCC	2 cut(s)	278, 386
AsuC2I	CCSGG	1 cut(s)	390
AsuHPI	GGTGA	2 cut(s)	213, 547
BaeGI	GKGCMC	1 cut(s)	580
BalI	TGGCCA	1 cut(s)	527
BanI	GGYRCC	1 cut(s)	283
BanII	GRGCYC	1 cut(s)	510
Bbv12I	GWGCWC	1 cut(s)	510
BbvI	GCAGC	2 cut(s)	91, 224
BccI	CCATC	2 cut(s)	149, 232
BceAI	ACGGC	2 cut(s)	316, 400
BcnI	CCSGG	1 cut(s)	390
BfaI	CTAG	3 cut(s)	108, 335, 581
BfmI	CTRYAG	2 cut(s)	86, 210
BfuAI	ACCTGC	1 cut(s)	93
BglII	AGATCT	1 cut(s)	74
BisI	GCNGC	4 cut(s)	6, 105, 213, 330
BlsI	GCNGC	4 cut(s)	7, 106, 214, 331
BmcAI	AGTACT	1 cut(s)	94
Bme1390I	CCNGG	1 cut(s)	390
BmgBI	CACGTC	1 cut(s)	262
BmgT120I	GGNCC	2 cut(s)	278, 386
BmiI	GGNNCC	3 cut(s)	285, 388, 444
BmrFI	CCNGG	1 cut(s)	390
BmsI	GCATC	2 cut(s)	443, 490
BplI	GAGNNNNNCTC	2 cut(s)	82, 114
BpuMI	CCSGG	1 cut(s)	390
BsaAI	YACGTR	1 cut(s)	565
BsaJI	CCNNGG	6 cut(s)	31, 351, 388, 438, 465, 495
BsaXI	ACNNNNNCTCC	2 cut(s)	450, 480
Bse118I	RCCGGY	2 cut(s)	280, 569
Bse3DI	GCAATG	1 cut(s)	318
BseDI	CCNNGG	6 cut(s)	31, 351, 388, 438, 465, 495
BseGI	GGATG	4 cut(s)	11, 160, 434, 505
BseMI	GCAATG	1 cut(s)	318
BseMII	CTCAG	3 cut(s)	145, 279, 386
BseRI	GAGGAG	5 cut(s)	87, 219, 222, 225, 228
BseSI	GKGCMC	1 cut(s)	580
BseXI	GCAGC	2 cut(s)	91, 224
BshFI	GGCC	3 cut(s)	280, 387, 527
BshNI	GGYRCC	1 cut(s)	283
BsiHKAI	GWGCWC	1 cut(s)	510
BsiSI	CCGG	3 cut(s)	281, 390, 570
BsmI	GAATGC	1 cut(s)	269
BsnI	GGCC	3 cut(s)	280, 387, 527
Bsp1286I	GDGCHC	2 cut(s)	510, 580
Bsp143I	GATC	2 cut(s)	74, 486
BspACI	CCGC	1 cut(s)	329
BspANI	GGCC	3 cut(s)	280, 387, 527
BspCNI	CTCAG	3 cut(s)	144, 280, 385
BspLI	GGNNCC	3 cut(s)	285, 388, 444
BspMAI	CTGCAG	2 cut(s)	90, 214
BspMI	ACCTGC	1 cut(s)	93
BspPI	GGATC	1 cut(s)	494
BspT107I	GGYRCC	1 cut(s)	283
BsrDI	GCAATG	1 cut(s)	318
BsrFI	RCCGGY	2 cut(s)	280, 569
BssAI	RCCGGY	2 cut(s)	280, 569
BssECI	CCNNGG	6 cut(s)	31, 351, 388, 438, 465, 495
BssMI	GATC	2 cut(s)	74, 486
BssT1I	CCWWGG	3 cut(s)	31, 351, 438
Bst4CI	ACNGT	2 cut(s)	58, 466
BstBAI	YACGTR	1 cut(s)	565
BstC8I	GCNNGC	5 cut(s)	64, 210, 282, 305, 309
BstDEI	CTNAG	3 cut(s)	131, 288, 372
BstDSI	CCRYGG	1 cut(s)	465
BstF5I	GGATG	4 cut(s)	11, 160, 434, 505
BstKTI	GATC	2 cut(s)	77, 489
BstMBI	GATC	2 cut(s)	74, 486
BstMWI	GCNNNNNNNGC	2 cut(s)	113, 335
BstSCI	CCNGG	1 cut(s)	388
BstSFI	CTRYAG	2 cut(s)	86, 210
BstSLI	GKGCMC	1 cut(s)	580
BstV1I	GCAGC	2 cut(s)	91, 224
BstX2I	RGATCY	2 cut(s)	74, 486
BstYI	RGATCY	2 cut(s)	74, 486
BsuRI	GGCC	3 cut(s)	280, 387, 527
BtgI	CCRYGG	1 cut(s)	465
BtrI	CACGTC	1 cut(s)	262
BtsCI	GGATG	4 cut(s)	11, 160, 434, 505
BtsI	GCAGTG	1 cut(s)	580
BtsIMutI	CAGTG	1 cut(s)	580
BveI	ACCTGC	1 cut(s)	93
Cac8I	GCNNGC	5 cut(s)	64, 210, 282, 305, 309
Cfr10I	RCCGGY	2 cut(s)	280, 569
Cfr13I	GGNCC	2 cut(s)	278, 386
Csp6I	GTAC	3 cut(s)	93, 395, 562
CviAII	CATG	1 cut(s)	529
CviQI	GTAC	3 cut(s)	93, 395, 562
DdeI	CTNAG	3 cut(s)	131, 288, 372
DpnI	GATC	2 cut(s)	76, 488
DpnII	GATC	2 cut(s)	74, 486
DrdI	GACNNNNNNGTC	1 cut(s)	469
DseDI	GACNNNNNNGTC	1 cut(s)	469
EaeI	YGGCCR	1 cut(s)	525
Ecl136II	GAGCTC	1 cut(s)	508
Eco130I	CCWWGG	3 cut(s)	31, 351, 438
Eco24I	GRGCYC	1 cut(s)	510
Eco32I	GATATC	1 cut(s)	378
Eco53kI	GAGCTC	1 cut(s)	508
EcoICRI	GAGCTC	1 cut(s)	508
EcoRV	GATATC	1 cut(s)	378
EcoT14I	CCWWGG	3 cut(s)	31, 351, 438
EcoT38I	GRGCYC	1 cut(s)	510
ErhI	CCWWGG	3 cut(s)	31, 351, 438
FaeI	CATG	1 cut(s)	532
FaiI	YATR	5 cut(s)	20, 51, 114, 146, 530
FatI	CATG	1 cut(s)	528
Fnu4HI	GCNGC	4 cut(s)	6, 105, 213, 330
FokI	GGATG	3 cut(s)	167, 421, 512
FriOI	GRGCYC	1 cut(s)	510
Fsp4HI	GCNGC	4 cut(s)	6, 105, 213, 330
FspBI	CTAG	3 cut(s)	108, 335, 581
GluI	GCNGC	4 cut(s)	6, 105, 213, 330
HaeIII	GGCC	3 cut(s)	280, 387, 527
HapII	CCGG	3 cut(s)	281, 390, 570
Hin1II	CATG	1 cut(s)	532
HinfI	GANTC	3 cut(s)	199, 294, 470
HpaII	CCGG	3 cut(s)	281, 390, 570
HphI	GGTGA	2 cut(s)	213, 547
Hpy188I	TCNGA	6 cut(s)	81, 249, 259, 375, 481, 499
Hpy188III	TCNNGA	1 cut(s)	511
Hpy99I	CGWCG	1 cut(s)	485
HpyAV	CCTTC	4 cut(s)	228, 252, 513, 562
HpyCH4III	ACNGT	2 cut(s)	58, 466
HpyCH4IV	ACGT	2 cut(s)	261, 564
HpyCH4V	TGCA	8 cut(s)	8, 22, 62, 88, 116, 212, 269, 503
HpyF10VI	GCNNNNNNNGC	2 cut(s)	113, 335
HpyF3I	CTNAG	3 cut(s)	131, 288, 372
HpySE526I	ACGT	2 cut(s)	261, 564
Hsp92II	CATG	1 cut(s)	532
KroI	GCCGGC	1 cut(s)	280
KroNI	GCCGGC	1 cut(s)	282
Kzo9I	GATC	2 cut(s)	74, 486
Lsp1109I	GCAGC	2 cut(s)	91, 224
LweI	GCATC	2 cut(s)	443, 490
MaeI	CTAG	3 cut(s)	108, 335, 581
MaeII	ACGT	2 cut(s)	261, 564
MaeIII	GTNAC	3 cut(s)	181, 460, 565
MalI	GATC	2 cut(s)	76, 488
MboI	GATC	2 cut(s)	74, 486
MflI	RGATCY	2 cut(s)	74, 486
MhlI	GDGCHC	2 cut(s)	510, 580
MlsI	TGGCCA	1 cut(s)	527
MluNI	TGGCCA	1 cut(s)	527
MlyI	GAGTC	1 cut(s)	479
MmeI	TCCRAC	2 cut(s)	405, 504
MnlI	CCTC	9 cut(s)	108, 145, 202, 240, 243, 246, 249, 456, 505
Mox20I	TGGCCA	1 cut(s)	527
MroNI	GCCGGC	1 cut(s)	280
MscI	TGGCCA	1 cut(s)	527
Msp20I	TGGCCA	1 cut(s)	527
MspA1I	CMGCKG	1 cut(s)	179
MspI	CCGG	3 cut(s)	281, 390, 570
MspR9I	CCNGG	1 cut(s)	390
Mva1269I	GAATGC	1 cut(s)	269
MwoI	GCNNNNNNNGC	2 cut(s)	113, 335
NaeI	GCCGGC	1 cut(s)	282
NciI	CCSGG	1 cut(s)	390
NdeII	GATC	2 cut(s)	74, 486
NgoMIV	GCCGGC	1 cut(s)	280
NlaIII	CATG	1 cut(s)	532
NlaIV	GGNNCC	3 cut(s)	285, 388, 444
NmuCI	GTSAC	2 cut(s)	460, 565
PctI	GAATGC	1 cut(s)	269
PdiI	GCCGGC	1 cut(s)	282
PfeI	GAWTC	2 cut(s)	199, 294
PkrI	GCNGC	4 cut(s)	7, 106, 214, 331
PleI	GAGTC	1 cut(s)	478
PpsI	GAGTC	1 cut(s)	478
Ppu21I	YACGTR	1 cut(s)	565
Psp124BI	GAGCTC	1 cut(s)	510
PspN4I	GGNNCC	3 cut(s)	285, 388, 444
PspPI	GGNCC	2 cut(s)	278, 386
PstI	CTGCAG	2 cut(s)	90, 214
PsuI	RGATCY	2 cut(s)	74, 486
PvuII	CAGCTG	1 cut(s)	179
RsaI	GTAC	3 cut(s)	94, 396, 563
RsaNI	GTAC	3 cut(s)	93, 395, 562
SacI	GAGCTC	1 cut(s)	510
SatI	GCNGC	4 cut(s)	6, 105, 213, 330
Sau3AI	GATC	2 cut(s)	74, 486
Sau96I	GGNCC	2 cut(s)	278, 386
ScaI	AGTACT	1 cut(s)	94
SchI	GAGTC	1 cut(s)	479
ScrFI	CCNGG	1 cut(s)	390
SduI	GDGCHC	2 cut(s)	510, 580
SfaNI	GCATC	2 cut(s)	443, 490
SfcI	CTRYAG	2 cut(s)	86, 210
SsiI	CCGC	1 cut(s)	329
SspMI	CTAG	3 cut(s)	108, 335, 581
SstI	GAGCTC	1 cut(s)	510
StyD4I	CCNGG	1 cut(s)	388
StyI	CCWWGG	3 cut(s)	31, 351, 438
TaaI	ACNGT	2 cut(s)	58, 466
TaiI	ACGT	2 cut(s)	264, 567
TaqI	TCGA	1 cut(s)	342
TatI	WGTACW	1 cut(s)	92
TauI	GCSGC	1 cut(s)	332
TfiI	GAWTC	2 cut(s)	199, 294
TscAI	CASTG	1 cut(s)	580
TseFI	GTSAC	2 cut(s)	460, 565
TseI	GCWGC	3 cut(s)	5, 104, 212
Tsp45I	GTSAC	2 cut(s)	460, 565
TspDTI	ATGAA	1 cut(s)	394
TspRI	CASTG	1 cut(s)	580
XspI	CTAG	3 cut(s)	108, 335, 581
ZrmI	AGTACT	1 cut(s)	94

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