Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr17

Orthogroup ID

OG0003670

Physical Location & Seq

Genomic Coordinates Forward (+)

17776273 .. 17779752

Gene Structure 3480 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD17G1172300.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1077 bp

ATGGAATCCGACGCAGAAGACACCAAGTCCCAATTAACCCAAAACCAAGACCCATCGACGCCGAAGCACAAGCACAAGAAGAGGAAGACGAAGAAAGCCACCGTACCAACCATTCCAACCGTCCAAGCCGCCGTCCAAGTCTACCCGGAAAACCCAGAGAAAACCCCACCTATAGTGGCCCATTTCTCATCTGGGTTCGACCCCACCAAGAAGCCAGACCCCAATTCGACCAAAATCGGGCTCTTTCGGAACGCCAACCGAGCCAAACGGGTCGAGCTTGTGGTGCACCCGGATGGGACCAATGTTGATTTTGTCGGGACTAGCTATACTGGTGCGGCCACGAGTGACCAGTACTGCAATTATGCGCTTGGTGTTCTTGATAAGGCCACTCAGACTCTGAAGATTGTACCTATTGTTTCTAACAAGTTATTTAGATTAGAACCAAAAGTTAAAGGGTATAACTACTCTGATATGGAACCTGCAACTTCAGCGGTGGGAGAACTTACTGCACAAGAGAAGGCAGAGAAGCAGATGCAGCTACATACTCTATATGGAACAAAGAAGTCTATTAGGGAGAGTAAGAAAATGCAGTCCTTGAAGCAAGCAGGCGGTCCTGATTCTCTAAAGGATTTGGATGCCAAAATTAAACATCTTGTGGTAAACAAGGAGGCTCTTGAAAGCGCTGAAGCCCAAAGCTCTCGCCATATCCCACTATTTAACGAATCTGCCACAACTCCCGAGGAGGCTTATCCACTAGACAAGATCATCATCACAGGAGAGTGGGATGACGTCCAAGATATTTATAATAAATTGCAAGGCGGAAATGAAGTTAAATGGGATGCTTTCCCAAATTTTGTGTTAAATAAAATCCAGAAGTTGAAGAATATTCGGGTTGAAGAGGAGAAGTTTAAGCTTGCTTGCATTTGCACATATATTACACATCTTATAAATTTCAAAGATCAGTATACCATGGATGGTGTTTCCTCTGCAAAGGGCCACAGAATCCCAAGCAGTCTACGCAATAAGTTTCTTAACATATTTGATCCGGCAGCAGGTTCAAGAAGGCAAACCCTATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003824 GO:0003899 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005736 GO:0006139 GO:0006351 GO:0006360 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0030880 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034062 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:0044452 GO:0044464 GO:0046483 GO:0055029 GO:0061695 GO:0070013 GO:0071704 GO:0090304 GO:0097659 GO:0097747 GO:0140098 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 map00230 map00240 map01100 map03020

Pfam Domains

Protein Families

RNA_pol_I_A49

Protein Analysis

359

Amino Acids

40.0

Weight (kDa)

9.14

Isoelectric Point (pI)

36.32

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_I_A49	PF06870	74 - 350	2.5e-32	A49-like RNA polymerase I associated factor

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: OG0003670)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G13940
fragaria_vesca	FvH4_2g14600 FvH4_2g14600 FvH4_2g14600 FvH4_6g34180 FvH4_6g47280
malus_domestica	MD09G1187900.v1.1 MD17G1172300.v1.1
prunus_persica	Prupe.3G044800_v2.0.a1
pyrus_communis	pycom09g10420 pycom09g10430 pycom17g16990 pycom17g17000
rosa_chinensis	RchiOBHm_Chr2g0144531 RchiOBHm_Chr2g0166351
rosa_laevigata	RLG00000020086 RLG00000021613
rosa_multiflora	Rmu_sc0005789.1_g000005 Rmu_sc0007974.1_g000004 Rmu_sc0029020.1_g000001 Rmu_sc0029020.1_g000002
rosa_roxburghii	Rroxscaffold_2G00084950 Rroxscaffold_2G00101230
rosa_rugosa	Rorug02G0387600 Rorug02G0522400
rosa_samantha	Rh2AG439600 Rh2AG588500 Rh2BG449700 Rh2BG600500 Rh2CG426600 Rh2CG571300 Rh2DG459600 Rh2DG610700
rosa_wichuraiana	Rw2G035960 Rw2G049040

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	804, 947
AatII	GACGTC	1 cut(s)	792
Acc36I	ACCTGC	2 cut(s)	487, 1043
AccI	GTMKAC	3 cut(s)	141, 965, 1015
AciI	CCGC	5 cut(s)	129, 335, 491, 609, 819
AclWI	GGATC	1 cut(s)	1037
AcoI	YGGCCR	1 cut(s)	336
AcsI	RAATTY	2 cut(s)	850, 949
AcuI	CTGAAG	3 cut(s)	419, 471, 705
AcyI	GRCGYC	2 cut(s)	59, 789
AfaI	GTAC	3 cut(s)	105, 353, 408
AfeI	AGCGCT	1 cut(s)	682
AfiI	CCNNNNNNNGG	2 cut(s)	237, 1052
AgsI	TTSAA	6 cut(s)	598, 677, 880, 896, 955, 1059
AhdI	GACNNNNNGTC	1 cut(s)	25
AluBI	AGCT	5 cut(s)	277, 324, 538, 696, 913
AluI	AGCT	5 cut(s)	277, 324, 538, 696, 913
Alw21I	GWGCWC	1 cut(s)	288
Alw44I	GTGCAC	1 cut(s)	284
AlwI	GGATC	1 cut(s)	1037
AlwNI	CAGNNNCTG	1 cut(s)	397
Ama87I	CYCGRG	1 cut(s)	737
Aor51HI	AGCGCT	1 cut(s)	682
AoxI	GGCC	4 cut(s)	177, 336, 384, 994
ApaLI	GTGCAC	1 cut(s)	284
ApeKI	GCWGC	2 cut(s)	535, 1049
ApoI	RAATTY	2 cut(s)	850, 949
AspLEI	GCGC	2 cut(s)	367, 683
AspS9I	GGNCC	4 cut(s)	178, 297, 611, 994
AsuC2I	CCSGG	2 cut(s)	146, 290
AvaI	CYCGRG	1 cut(s)	737
AvaII	GGWCC	2 cut(s)	297, 611
BaeGI	GKGCMC	1 cut(s)	288
BanII	GRGCYC	1 cut(s)	243
BauI	CACGAG	1 cut(s)	340
BbsI	GAAGAC	2 cut(s)	24, 92
Bbv12I	GWGCWC	1 cut(s)	288
BbvI	GCAGC	2 cut(s)	547, 1061
BccI	CCATC	3 cut(s)	61, 287, 968
BceAI	ACGGC	1 cut(s)	116
BcnI	CCSGG	2 cut(s)	146, 290
BfaI	CTAG	2 cut(s)	321, 755
BfmI	CTRYAG	1 cut(s)	171
BfoI	RGCGCY	1 cut(s)	684
BfuAI	ACCTGC	2 cut(s)	487, 1043
BisI	GCNGC	4 cut(s)	129, 336, 536, 1050
BlsI	GCNGC	4 cut(s)	130, 337, 537, 1051
BmcAI	AGTACT	1 cut(s)	353
Bme1390I	CCNGG	2 cut(s)	146, 290
Bme18I	GGWCC	2 cut(s)	297, 611
BmeRI	GACNNNNNGTC	1 cut(s)	25
BmeT110I	CYCGRG	1 cut(s)	737
BmgT120I	GGNCC	4 cut(s)	178, 297, 611, 994
BmiI	GGNNCC	2 cut(s)	298, 477
BmrFI	CCNGG	2 cut(s)	146, 290
BmsI	GCATC	3 cut(s)	522, 625, 829
BpiI	GAAGAC	2 cut(s)	24, 92
BpuMI	CCSGG	2 cut(s)	146, 290
BsaBI	GATNNNNATC	1 cut(s)	767
BsaHI	GRCGYC	2 cut(s)	59, 789
BsaJI	CCNNGG	2 cut(s)	738, 969
Bsc4I	CCNNNNNNNGG	2 cut(s)	237, 1052
Bse1I	ACTGG	2 cut(s)	334, 349
Bse8I	GATNNNNATC	1 cut(s)	767
BseDI	CCNNGG	2 cut(s)	738, 969
BseGI	GGATG	5 cut(s)	298, 640, 790, 844, 979
BseJI	GATNNNNATC	1 cut(s)	767
BseLI	CCNNNNNNNGG	2 cut(s)	237, 1052
BseMII	CTCAG	1 cut(s)	404
BseNI	ACTGG	2 cut(s)	334, 349
BseRI	GAGGAG	2 cut(s)	755, 914
BseSI	GKGCMC	1 cut(s)	288
BseXI	GCAGC	2 cut(s)	547, 1061
BsgI	GTGCAG	1 cut(s)	492
BshFI	GGCC	4 cut(s)	179, 338, 386, 996
BsiHKAI	GWGCWC	1 cut(s)	288
BsiHKCI	CYCGRG	1 cut(s)	737
BsiSI	CCGG	3 cut(s)	146, 290, 1046
BslFI	GGGAC	3 cut(s)	13, 310, 331
BslI	CCNNNNNNNGG	2 cut(s)	237, 1052
BsmFI	GGGAC	3 cut(s)	13, 310, 331
BsnI	GGCC	4 cut(s)	179, 338, 386, 996
BsoBI	CYCGRG	1 cut(s)	737
Bsp1286I	GDGCHC	2 cut(s)	243, 288
Bsp143I	GATC	3 cut(s)	762, 958, 1042
Bsp19I	CCATGG	1 cut(s)	969
BspACI	CCGC	5 cut(s)	129, 335, 491, 609, 819
BspANI	GGCC	4 cut(s)	179, 338, 386, 996
BspCNI	CTCAG	1 cut(s)	403
BspLI	GGNNCC	2 cut(s)	298, 477
BspMI	ACCTGC	2 cut(s)	487, 1043
BspPI	GGATC	1 cut(s)	1037
BsrI	ACTGG	2 cut(s)	334, 349
BssECI	CCNNGG	2 cut(s)	738, 969
BssMI	GATC	3 cut(s)	762, 958, 1042
BssNAI	GTATAC	1 cut(s)	966
BssNI	GRCGYC	2 cut(s)	59, 789
BssSI	CACGAG	1 cut(s)	340
BssT1I	CCWWGG	1 cut(s)	969
Bst1107I	GTATAC	1 cut(s)	966
Bst2BI	CACGAG	1 cut(s)	340
Bst4CI	ACNGT	2 cut(s)	103, 121
Bst6I	CTCTTC	2 cut(s)	74, 891
BstACI	GRCGYC	2 cut(s)	59, 789
BstC8I	GCNNGC	4 cut(s)	603, 607, 915, 919
BstDEI	CTNAG	1 cut(s)	390
BstDSI	CCRYGG	1 cut(s)	969
BstF5I	GGATG	5 cut(s)	298, 640, 790, 844, 979
BstH2I	RGCGCY	1 cut(s)	684
BstHHI	GCGC	2 cut(s)	367, 683
BstKTI	GATC	3 cut(s)	765, 961, 1045
BstMBI	GATC	3 cut(s)	762, 958, 1042
BstMWI	GCNNNNNNNGC	5 cut(s)	260, 283, 488, 535, 1017
BstSCI	CCNGG	2 cut(s)	144, 288
BstSFI	CTRYAG	1 cut(s)	171
BstSLI	GKGCMC	1 cut(s)	288
BstV1I	GCAGC	2 cut(s)	547, 1061
BstV2I	GAAGAC	2 cut(s)	24, 92
BstZ17I	GTATAC	1 cut(s)	966
BsuRI	GGCC	4 cut(s)	179, 338, 386, 996
BtgI	CCRYGG	1 cut(s)	969
BtsCI	GGATG	5 cut(s)	298, 640, 790, 844, 979
BveI	ACCTGC	2 cut(s)	487, 1043
Cac8I	GCNNGC	4 cut(s)	603, 607, 915, 919
CaiI	CAGNNNCTG	1 cut(s)	397
CfoI	GCGC	2 cut(s)	367, 683
Cfr13I	GGNCC	4 cut(s)	178, 297, 611, 994
CseI	GACGC	2 cut(s)	20, 67
Csp6I	GTAC	3 cut(s)	104, 352, 407
CviAII	CATG	1 cut(s)	970
CviQI	GTAC	3 cut(s)	104, 352, 407
DdeI	CTNAG	1 cut(s)	390
DpnI	GATC	3 cut(s)	764, 960, 1044
DpnII	GATC	3 cut(s)	762, 958, 1042
DriI	GACNNNNNGTC	1 cut(s)	25
EaeI	YGGCCR	1 cut(s)	336
Eam1104I	CTCTTC	2 cut(s)	74, 891
Eam1105I	GACNNNNNGTC	1 cut(s)	25
EarI	CTCTTC	2 cut(s)	74, 891
EciI	GGCGGA	1 cut(s)	834
Eco130I	CCWWGG	1 cut(s)	969
Eco24I	GRGCYC	1 cut(s)	243
Eco47I	GGWCC	2 cut(s)	297, 611
Eco47III	AGCGCT	1 cut(s)	682
Eco57I	CTGAAG	3 cut(s)	419, 471, 705
Eco88I	CYCGRG	1 cut(s)	737
EcoT14I	CCWWGG	1 cut(s)	969
EcoT38I	GRGCYC	1 cut(s)	243
ErhI	CCWWGG	1 cut(s)	969
FaeI	CATG	1 cut(s)	973
FaqI	GGGAC	3 cut(s)	13, 310, 331
FatI	CATG	1 cut(s)	969
FblI	GTMKAC	3 cut(s)	141, 965, 1015
Fnu4HI	GCNGC	4 cut(s)	129, 336, 536, 1050
FokI	GGATG	5 cut(s)	305, 647, 797, 851, 986
FriOI	GRGCYC	1 cut(s)	243
Fsp4HI	GCNGC	4 cut(s)	129, 336, 536, 1050
FspBI	CTAG	2 cut(s)	321, 755
GlaI	GCGC	2 cut(s)	366, 682
GluI	GCNGC	4 cut(s)	129, 336, 536, 1050
HaeII	RGCGCY	1 cut(s)	684
HaeIII	GGCC	4 cut(s)	179, 338, 386, 996
HapII	CCGG	3 cut(s)	146, 290, 1046
HgaI	GACGC	2 cut(s)	20, 67
HhaI	GCGC	2 cut(s)	367, 683
Hin1I	GRCGYC	2 cut(s)	59, 789
Hin1II	CATG	1 cut(s)	973
Hin6I	GCGC	2 cut(s)	365, 681
HinP1I	GCGC	2 cut(s)	365, 681
HindIII	AAGCTT	1 cut(s)	911
HinfI	GANTC	5 cut(s)	5, 394, 617, 722, 1002
HpaII	CCGG	3 cut(s)	146, 290, 1046
Hpy166II	GTNNAC	5 cut(s)	142, 286, 661, 966, 1016
Hpy188I	TCNGA	5 cut(s)	10, 249, 393, 399, 469
Hpy188III	TCNNGA	7 cut(s)	316, 377, 614, 674, 737, 871, 1059
Hpy8I	GTNNAC	5 cut(s)	142, 286, 661, 966, 1016
Hpy99I	CGWCG	2 cut(s)	14, 61
HpyAV	CCTTC	2 cut(s)	511, 1056
HpyCH4III	ACNGT	2 cut(s)	103, 121
HpyCH4IV	ACGT	1 cut(s)	789
HpyF10VI	GCNNNNNNNGC	5 cut(s)	260, 283, 488, 535, 1017
HpyF3I	CTNAG	1 cut(s)	390
HpySE526I	ACGT	1 cut(s)	789
Hsp92I	GRCGYC	2 cut(s)	59, 789
Hsp92II	CATG	1 cut(s)	973
HspAI	GCGC	2 cut(s)	365, 681
Kzo9I	GATC	3 cut(s)	762, 958, 1042
Lsp1109I	GCAGC	2 cut(s)	547, 1061
LweI	GCATC	3 cut(s)	522, 625, 829
MaeI	CTAG	2 cut(s)	321, 755
MaeII	ACGT	1 cut(s)	789
MaeIII	GTNAC	1 cut(s)	344
MalI	GATC	3 cut(s)	764, 960, 1044
MboI	GATC	3 cut(s)	762, 958, 1042
MboII	GAAGA	7 cut(s)	29, 91, 97, 103, 412, 892, 908
MhlI	GDGCHC	2 cut(s)	243, 288
MluCI	AATT	7 cut(s)	32, 223, 358, 642, 809, 850, 949
MlyI	GAGTC	1 cut(s)	388
MmeI	TCCRAC	2 cut(s)	33, 140
MnlI	CCTC	6 cut(s)	75, 661, 733, 736, 892, 994
MseI	TTAA	8 cut(s)	35, 450, 645, 717, 831, 860, 909, 1032
MslI	CAYNNNNRTG	1 cut(s)	291
MspA1I	CMGCKG	1 cut(s)	491
MspI	CCGG	3 cut(s)	146, 290, 1046
MspR9I	CCNGG	2 cut(s)	146, 290
MwoI	GCNNNNNNNGC	5 cut(s)	260, 283, 488, 535, 1017
NciI	CCSGG	2 cut(s)	146, 290
NcoI	CCATGG	1 cut(s)	969
NdeII	GATC	3 cut(s)	762, 958, 1042
NlaIII	CATG	1 cut(s)	973
NlaIV	GGNNCC	2 cut(s)	298, 477
NmuCI	GTSAC	1 cut(s)	344
PfeI	GAWTC	4 cut(s)	5, 617, 722, 1002
PkrI	GCNGC	4 cut(s)	130, 337, 537, 1051
PleI	GAGTC	1 cut(s)	388
PpsI	GAGTC	1 cut(s)	388
PsiI	TTATAA	2 cut(s)	804, 947
PspN4I	GGNNCC	2 cut(s)	298, 477
PspPI	GGNCC	4 cut(s)	178, 297, 611, 994
PstNI	CAGNNNCTG	1 cut(s)	397
RsaI	GTAC	3 cut(s)	105, 353, 408
RsaNI	GTAC	3 cut(s)	104, 352, 407
RseI	CAYNNNNRTG	1 cut(s)	291
SaqAI	TTAA	8 cut(s)	35, 450, 645, 717, 831, 860, 909, 1032
SatI	GCNGC	4 cut(s)	129, 336, 536, 1050
Sau3AI	GATC	3 cut(s)	762, 958, 1042
Sau96I	GGNCC	4 cut(s)	178, 297, 611, 994
ScaI	AGTACT	1 cut(s)	353
SchI	GAGTC	1 cut(s)	388
ScrFI	CCNGG	2 cut(s)	146, 290
SduI	GDGCHC	2 cut(s)	243, 288
SfaNI	GCATC	3 cut(s)	522, 625, 829
SfcI	CTRYAG	1 cut(s)	171
SinI	GGWCC	2 cut(s)	297, 611
SmiMI	CAYNNNNRTG	1 cut(s)	291
Sse9I	AATT	7 cut(s)	32, 223, 358, 642, 809, 850, 949
SsiI	CCGC	5 cut(s)	129, 335, 491, 609, 819
SspI	AATATT	1 cut(s)	886
SspMI	CTAG	2 cut(s)	321, 755
StyD4I	CCNGG	2 cut(s)	144, 288
StyI	CCWWGG	1 cut(s)	969
TaaI	ACNGT	2 cut(s)	103, 121
TaiI	ACGT	1 cut(s)	792
TaqI	TCGA	4 cut(s)	56, 198, 227, 273
TasI	AATT	7 cut(s)	32, 223, 358, 642, 809, 850, 949
TatI	WGTACW	1 cut(s)	351
TauI	GCSGC	2 cut(s)	131, 338
TfiI	GAWTC	4 cut(s)	5, 617, 722, 1002
Tru1I	TTAA	8 cut(s)	35, 450, 645, 717, 831, 860, 909, 1032
Tru9I	TTAA	8 cut(s)	35, 450, 645, 717, 831, 860, 909, 1032
TseFI	GTSAC	1 cut(s)	344
TseI	GCWGC	2 cut(s)	535, 1049
Tsp45I	GTSAC	1 cut(s)	344
TspDTI	ATGAA	1 cut(s)	840
VneI	GTGCAC	1 cut(s)	284
VpaK11BI	GGWCC	2 cut(s)	297, 611
XapI	RAATTY	2 cut(s)	850, 949
XcmI	CCANNNNNNNNNTGG	1 cut(s)	188
XmiI	GTMKAC	3 cut(s)	141, 965, 1015
XspI	CTAG	2 cut(s)	321, 755
ZraI	GACGTC	1 cut(s)	790
ZrmI	AGTACT	1 cut(s)	353

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