Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr15

Orthogroup ID

OG0000701

Physical Location & Seq

Genomic Coordinates Forward (+)

16647837 .. 16649253

Gene Structure 1417 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD15G1208600.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 495 bp

ATGAAGACTTGTACCAACCGCTTGAAGTCGGAGAATGTGCTCAGATCAATCTTGGTTACTCAACAAAGTCTGACGCCCTTTGCAAAGGCCTGTATCAGTGAGATATCCGGAAAGTTCCACTTGGAGGTTTTTCTGTATTGTTCGTCTGATGAATGGGTATGGCCCTACACTTTAGAGGGTTGGGTTGGATGCATAGGGTTGGGTTGGGAGGAGAATTTTTGTTTACCCCACATACAAAATATTGGCTCCACCTATAGTTGCATCAGGTGCTTCAAACTTAAAGAGCACGTTCTAGTTCCTGAACATGGGGTGCTTACGAATGAGGAAAAGAAGACTTTGCTGGAGAGATACACTGTTAAGGAAACACAGCTCCCTCGGATTCAGGCGACTGATCCAATTGCAAAATACTATGGGCTTAAGCGTGCACAAGTTGTGAAGATAATTCGACCAAGTGAGACTGCAGGGCGATATGTCACCTACCGTTACTTCATATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000418 GO:0000428 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005666 GO:0005730 GO:0005736 GO:0006139 GO:0006351 GO:0006366 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0016591 GO:0018130 GO:0019438 GO:0030880 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044452 GO:0044464 GO:0046483 GO:0055029 GO:0061695 GO:0070013 GO:0071704 GO:0090304 GO:0097659 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko04623 ko05016 ko05169 map00230 map00240 map01100 map03020 map04623 map05016 map05169

Pfam Domains

Protein Families

RNA_pol_Rpb5_C RNA_pol_Rpb5_N

Protein Analysis

165

Amino Acids

19.0

Weight (kDa)

8.81

Isoelectric Point (pI)

36.23

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb5_C	PF01191	91 - 162	2.3e-33	RNA polymerase Rpb5, C-terminal domain

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: OG0000701)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G22320
fragaria_vesca	FvH4_5g21560 FvH4_7g09301 FvH4_7g09301
malus_domestica	MD02G1080800.v1.1 MD02G1093900.v1.1 MD15G1208600.v1.1
prunus_persica	Prupe.2G121300_v2.0.a1 Prupe.2G121300_v2.0.a1 Prupe.2G121400_v2.0.a1 Prupe.2G121400_v2.0.a1
pyrus_communis	pycom02g06410 pycom02g07430 pycom15g18470
rosa_chinensis	RchiOBHm_Chr1g0332791 RchiOBHm_Chr1g0344101 RchiOBHm_Chr1g0344151 RchiOBHm_Chr1g0344171 RchiOBHm_Chr1g0345361 RchiOBHm_Chr1g0345421 RchiOBHm_Chr1g0345561 RchiOBHm_Chr1g0345591 RchiOBHm_Chr1g0345671 RchiOBHm_Chr1g0345701 RchiOBHm_Chr1g0345711 RchiOBHm_Chr1g0345721 RchiOBHm_Chr1g0345801 RchiOBHm_Chr1g0345851 RchiOBHm_Chr1g0345901 RchiOBHm_Chr1g0345921 RchiOBHm_Chr1g0345931 RchiOBHm_Chr1g0345951 RchiOBHm_Chr1g0345961 RchiOBHm_Chr7g0208981
rosa_laevigata	RLG00000003175 RLG00000029644
rosa_multiflora	Rmu_co8382943.1_g000001 Rmu_sc0000532.1_g000035 Rmu_sc0001292.1_g000003 Rmu_sc0001349.1_g000004 Rmu_sc0001692.1_g000006 Rmu_sc0001692.1_g000027 Rmu_sc0002329.1_g000024 Rmu_sc0002329.1_g000032 Rmu_sc0004239.1_g000023 Rmu_sc0008115.1_g000011
rosa_roxburghii	Rroxscaffold_3G00238160 Rroxscaffold_3G00249920 Rroxscaffold_4G00310020 Rroxscaffold_4G00317980 Rroxscaffold_5G00344600
rosa_rugosa	Rorug01G0103700 Rorug01G0103800 Rorug01G0103900 Rorug01G0171800 Rorug07G0107800
rosa_samantha	Rh1BG097500 Rh1BG161500 Rh1CG122000 Rh1CG173900 Rh1CG180700 Rh1CG181100 Rh1DG133900 Rh1DG191900 Rh7AG242600 Rh7BG237400 Rh7DG249500
rosa_wichuraiana	Rw1G010510 Rw1G016120 Rw1G016200 Rw1G016220 Rw1G016430 Rw1G016490 Rw7G020550

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccIII	TCCGGA	1 cut(s)	107
AciI	CCGC	1 cut(s)	19
AclWI	GGATC	1 cut(s)	386
AcsI	RAATTY	1 cut(s)	214
AcyI	GRCGYC	1 cut(s)	74
AfaI	GTAC	1 cut(s)	13
AfiI	CCNNNNNNNGG	2 cut(s)	124, 305
AflII	CTTAAG	1 cut(s)	416
AgsI	TTSAA	2 cut(s)	25, 274
AluBI	AGCT	1 cut(s)	370
AluI	AGCT	1 cut(s)	370
Alw21I	GWGCWC	3 cut(s)	42, 288, 427
Alw26I	GTCTC	1 cut(s)	449
Alw44I	GTGCAC	1 cut(s)	423
AlwI	GGATC	1 cut(s)	386
Aor13HI	TCCGGA	1 cut(s)	107
AoxI	GGCC	2 cut(s)	87, 161
ApaLI	GTGCAC	1 cut(s)	423
ApoI	RAATTY	1 cut(s)	214
AspS9I	GGNCC	1 cut(s)	162
AsuHPI	GGTGA	1 cut(s)	466
BaeGI	GKGCMC	1 cut(s)	427
BbsI	GAAGAC	2 cut(s)	11, 338
Bbv12I	GWGCWC	3 cut(s)	42, 288, 427
BcoDI	GTCTC	1 cut(s)	449
BfaI	CTAG	1 cut(s)	293
BfmI	CTRYAG	2 cut(s)	253, 459
BfrI	CTTAAG	1 cut(s)	416
BmgT120I	GGNCC	1 cut(s)	162
BmiI	GGNNCC	1 cut(s)	247
BmsI	GCATC	2 cut(s)	179, 270
BpiI	GAAGAC	2 cut(s)	11, 338
BpmI	CTGGAG	1 cut(s)	362
BsaHI	GRCGYC	1 cut(s)	74
BsaJI	CCNNGG	1 cut(s)	374
BsaWI	WCCGGW	1 cut(s)	107
Bsc4I	CCNNNNNNNGG	2 cut(s)	124, 305
BseAI	TCCGGA	1 cut(s)	107
BseDI	CCNNGG	1 cut(s)	374
BseGI	GGATG	1 cut(s)	194
BseLI	CCNNNNNNNGG	2 cut(s)	124, 305
BseMII	CTCAG	1 cut(s)	55
BseRI	GAGGAG	1 cut(s)	224
BseSI	GKGCMC	1 cut(s)	427
BshFI	GGCC	2 cut(s)	89, 163
BsiHKAI	GWGCWC	3 cut(s)	42, 288, 427
BsiSI	CCGG	1 cut(s)	108
BslI	CCNNNNNNNGG	2 cut(s)	124, 305
BsmAI	GTCTC	1 cut(s)	449
BsnI	GGCC	2 cut(s)	89, 163
Bsp1286I	GDGCHC	3 cut(s)	42, 288, 427
Bsp13I	TCCGGA	1 cut(s)	107
Bsp143I	GATC	2 cut(s)	44, 391
BspACI	CCGC	1 cut(s)	19
BspANI	GGCC	2 cut(s)	89, 163
BspCNI	CTCAG	1 cut(s)	54
BspEI	TCCGGA	1 cut(s)	107
BspLI	GGNNCC	1 cut(s)	247
BspMAI	CTGCAG	1 cut(s)	463
BspPI	GGATC	1 cut(s)	386
BspTI	CTTAAG	1 cut(s)	416
BssECI	CCNNGG	1 cut(s)	374
BssMI	GATC	2 cut(s)	44, 391
BssNI	GRCGYC	1 cut(s)	74
Bst4CI	ACNGT	2 cut(s)	355, 482
BstACI	GRCGYC	1 cut(s)	74
BstAFI	CTTAAG	1 cut(s)	416
BstAPI	GCANNNNNTGC	1 cut(s)	267
BstC8I	GCNNGC	1 cut(s)	423
BstDEI	CTNAG	1 cut(s)	41
BstF5I	GGATG	1 cut(s)	194
BstKTI	GATC	2 cut(s)	47, 394
BstMAI	GTCTC	1 cut(s)	449
BstMBI	GATC	2 cut(s)	44, 391
BstMWI	GCNNNNNNNGC	1 cut(s)	267
BstSFI	CTRYAG	2 cut(s)	253, 459
BstSLI	GKGCMC	1 cut(s)	427
BstV2I	GAAGAC	2 cut(s)	11, 338
BsuRI	GGCC	2 cut(s)	89, 163
BtsCI	GGATG	1 cut(s)	194
BtsIMutI	CAGTG	2 cut(s)	103, 351
Cac8I	GCNNGC	1 cut(s)	423
Cfr13I	GGNCC	1 cut(s)	162
CseI	GACGC	1 cut(s)	82
Csp6I	GTAC	1 cut(s)	12
CviAII	CATG	1 cut(s)	305
CviJI	RGCY	5 cut(s)	89, 163, 246, 370, 415
CviKI_1	RGCY	5 cut(s)	89, 163, 246, 370, 415
CviQI	GTAC	1 cut(s)	12
DdeI	CTNAG	1 cut(s)	41
DpnI	GATC	2 cut(s)	46, 393
DpnII	GATC	2 cut(s)	44, 391
Eco147I	AGGCCT	1 cut(s)	89
Eco32I	GATATC	1 cut(s)	105
EcoRV	GATATC	1 cut(s)	105
EcoT22I	ATGCAT	1 cut(s)	194
FaeI	CATG	1 cut(s)	308
FaiI	YATR	9 cut(s)	160, 194, 233, 255, 306, 411, 471, 491, 493
FalI	AAGNNNNNCTT	2 cut(s)	104, 136
FatI	CATG	1 cut(s)	304
FokI	GGATG	1 cut(s)	201
FspBI	CTAG	1 cut(s)	293
GsuI	CTGGAG	1 cut(s)	362
HaeIII	GGCC	2 cut(s)	89, 163
HapII	CCGG	1 cut(s)	108
HgaI	GACGC	1 cut(s)	82
Hin1I	GRCGYC	1 cut(s)	74
Hin1II	CATG	1 cut(s)	308
HinfI	GANTC	1 cut(s)	379
HpaII	CCGG	1 cut(s)	108
HphI	GGTGA	1 cut(s)	466
Hpy166II	GTNNAC	2 cut(s)	224, 425
Hpy188I	TCNGA	5 cut(s)	31, 44, 72, 148, 378
Hpy188III	TCNNGA	2 cut(s)	108, 299
Hpy8I	GTNNAC	2 cut(s)	224, 425
HpyCH4III	ACNGT	2 cut(s)	355, 482
HpyCH4IV	ACGT	1 cut(s)	288
HpyCH4V	TGCA	6 cut(s)	83, 192, 261, 401, 425, 461
HpyF10VI	GCNNNNNNNGC	1 cut(s)	267
HpyF3I	CTNAG	1 cut(s)	41
HpySE526I	ACGT	1 cut(s)	288
Hsp92I	GRCGYC	1 cut(s)	74
Hsp92II	CATG	1 cut(s)	308
Kpn2I	TCCGGA	1 cut(s)	107
Kzo9I	GATC	2 cut(s)	44, 391
LmnI	GCTCC	2 cut(s)	251, 375
LpnPI	CCDG	7 cut(s)	103, 121, 250, 312, 326, 368, 447
LweI	GCATC	2 cut(s)	179, 270
MaeI	CTAG	1 cut(s)	293
MaeII	ACGT	1 cut(s)	288
MaeIII	GTNAC	3 cut(s)	55, 472, 482
MalI	GATC	2 cut(s)	46, 393
MboI	GATC	2 cut(s)	44, 391
MboII	GAAGA	3 cut(s)	16, 343, 448
MfeI	CAATTG	1 cut(s)	396
MhlI	GDGCHC	3 cut(s)	42, 288, 427
MluCI	AATT	3 cut(s)	214, 396, 441
MmeI	TCCRAC	2 cut(s)	9, 166
MnlI	CCTC	5 cut(s)	118, 169, 202, 316, 384
Mph1103I	ATGCAT	1 cut(s)	194
MroI	TCCGGA	1 cut(s)	107
MseI	TTAA	3 cut(s)	279, 357, 417
MspCI	CTTAAG	1 cut(s)	416
MspI	CCGG	1 cut(s)	108
MunI	CAATTG	1 cut(s)	396
MwoI	GCNNNNNNNGC	1 cut(s)	267
NdeII	GATC	2 cut(s)	44, 391
NlaIII	CATG	1 cut(s)	308
NlaIV	GGNNCC	1 cut(s)	247
NmuCI	GTSAC	1 cut(s)	472
NsiI	ATGCAT	1 cut(s)	194
PceI	AGGCCT	1 cut(s)	89
PfeI	GAWTC	1 cut(s)	379
PspN4I	GGNNCC	1 cut(s)	247
PspPI	GGNCC	1 cut(s)	162
PstI	CTGCAG	1 cut(s)	463
RsaI	GTAC	1 cut(s)	13
RsaNI	GTAC	1 cut(s)	12
SaqAI	TTAA	3 cut(s)	279, 357, 417
Sau3AI	GATC	2 cut(s)	44, 391
Sau96I	GGNCC	1 cut(s)	162
SduI	GDGCHC	3 cut(s)	42, 288, 427
SetI	ASST	6 cut(s)	129, 254, 269, 291, 372, 479
SfaNI	GCATC	2 cut(s)	179, 270
SfcI	CTRYAG	2 cut(s)	253, 459
SmlI	CTYRAG	1 cut(s)	416
SmoI	CTYRAG	1 cut(s)	416
Sse9I	AATT	3 cut(s)	214, 396, 441
SseBI	AGGCCT	1 cut(s)	89
SsiI	CCGC	1 cut(s)	19
SspI	AATATT	1 cut(s)	241
SspMI	CTAG	1 cut(s)	293
StuI	AGGCCT	1 cut(s)	89
TaaI	ACNGT	2 cut(s)	355, 482
TaiI	ACGT	1 cut(s)	291
TaqI	TCGA	1 cut(s)	445
TasI	AATT	3 cut(s)	214, 396, 441
TfiI	GAWTC	1 cut(s)	379
Tru1I	TTAA	3 cut(s)	279, 357, 417
Tru9I	TTAA	3 cut(s)	279, 357, 417
TscAI	CASTG	2 cut(s)	103, 358
TseFI	GTSAC	1 cut(s)	472
Tsp45I	GTSAC	1 cut(s)	472
TspDTI	ATGAA	3 cut(s)	17, 165, 478
TspRI	CASTG	2 cut(s)	103, 358
Vha464I	CTTAAG	1 cut(s)	416
VneI	GTGCAC	1 cut(s)	423
XapI	RAATTY	1 cut(s)	214
XspI	CTAG	1 cut(s)	293
Zsp2I	ATGCAT	1 cut(s)	194

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