Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr00

Orthogroup ID

OG0002185

Physical Location & Seq

Genomic Coordinates Reverse (-)

27399818 .. 27402101

Gene Structure 2284 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD00G1128500.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1059 bp

ATGGGGGTGCCCTCGTTTTTCAAATGGCTGGTGAACAAGTATCCCAAAGTGGTGGTCAAAGCTATCGAAGGTCAGAGAGAGGAGTCTCCAAACCCAAACCCTACTAACTTGGAGTTCGATAACTTTTATCTTGACATGAATGGGATCATCCATCCTTGCTTCCACCCAGAAGCAGCTGACGATGATGATGATGGACTTTTGCCACCAGCAAATTTTGAAGAGGTGTTCATCAATATTTTTGAATATATTGATATACTTTTCAATATTGTTAGGCCACGGAAGCTACTATACTTGGCCATAGATGGAGTTGCTCCAAGGGCTAAAATGAATCAACAGCGAATGAGGCGCTTTAAGTCAGCGAAGGACGCTGAGTTCGCTGAAGTTGAAGAAGAGAAGCTGAGAAGACAGTTTGAATTGGAAAGCAAACAAGTCCTACCAAAGCAGCAGTCCGAAGTATCAGATTCTAATATAATAACCCCCGGAACTGAATTTATGCATAAATTGTCAAAGGCTCTTCGAAACTATATCAGTTTACGTTTGAGCAATGATCTAGGCTGGAGGGACATCGAGATAATTCTGTCTGATGCCAATGCTCCTGGGGAAGGTGAGCACAAAATAATGTCATTCATACGCTCACAGCGCAATCTTCCTTCATATGATCCAAACACGCGCCATTGCTTATATGGACTGGATGCTGATCTTGTCATGTTGGCTTTGGCGACGCATGAGCTTCACTTTTCCATATTGAGAGAGCGTCATACAAACTGTGAATCTATTCGAGAGAAAGGTCCATTTTCAGGAAAGTCAGATAACAAAAAAAGATCCATGCTAAAAAAGCCCTATCAGTTTCTTCATGTTTGGATTTTGAGGGAATACTTGGAGCTTGATTTGAAAATTGACGACCCACCCGAGAACTTTAAGTTTGATCTTGAGCGTATAATTGATGACTTCATCTTCATGTACTTTTTTGCGGGAAATGATTTTCTGCCCCACATGCCAACTTTGGAAATTCATGAGGTTCTTTGTAAACTTCATTGTTTTATGGCCCTTGTTTTGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000966 GO:0000967 GO:0003674 GO:0003824 GO:0004518 GO:0004527 GO:0004532 GO:0004534 GO:0004540 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006364 GO:0006396 GO:0006401 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008409 GO:0009056 GO:0009057 GO:0009893 GO:0009987 GO:0010467 GO:0010468 GO:0010586 GO:0010587 GO:0010604 GO:0010628 GO:0016070 GO:0016072 GO:0016075 GO:0016787 GO:0016788 GO:0016796 GO:0016896 GO:0019222 GO:0019439 GO:0022613 GO:0034470 GO:0034471 GO:0034641 GO:0034655 GO:0034660 GO:0034661 GO:0042254 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043632 GO:0043633 GO:0043634 GO:0044085 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044265 GO:0044270 GO:0044424 GO:0044464 GO:0046483 GO:0046700 GO:0048518 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0060147 GO:0060149 GO:0060255 GO:0060968 GO:0060969 GO:0065007 GO:0071025 GO:0071027 GO:0071029 GO:0071035 GO:0071046 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0090501 GO:0090503 GO:0140098 GO:1901360 GO:1901361 GO:1901575

KEGG Pathways

Metabolic & Signaling

ko03008 ko03018 map03008 map03018

Pfam Domains

Protein Families

XRN_N

Protein Analysis

353

Amino Acids

41.15

Weight (kDa)

5.61

Isoelectric Point (pI)

53.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
XRN_N	PF03159	1 - 251	1.3e-100	XRN 5'-3' exonuclease N-terminus
XRN_M	PF17846	307 - 341	1.5e-15	Xrn1 helical 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: OG0002185)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G75660 AT5G42540 AT5G42540
fragaria_vesca	FvH4_2g38700 FvH4_2g38700 FvH4_5g21470
malus_domestica	MD00G1128500.v1.1 MD08G1014700.v1.1 MD15G1014000.v1.1
prunus_persica	Prupe.1G367600_v2.0.a1 Prupe.1G367600_v2.0.a1 Prupe.1G367600_v2.0.a1 Prupe.1G367600_v2.0.a1 Prupe.1G367600_v2.0.a1 Prupe.1G367600_v2.0.a1 Prupe.1G367600_v2.0.a1 Prupe.1G367600_v2.0.a1
pyrus_communis	pycom08g01310 pycom15g01210
rosa_chinensis	RchiOBHm_Chr5g0009961 RchiOBHm_Chr6g0302611
rosa_laevigata	RLG00000011157 RLG00000031714
rosa_multiflora	Rmu_sc0027322.1_g000001 Rmu_sc0027323.1_g000001 Rmu_sc0039467.1_g000001 Rmu_sc0039989.1_g000001 Rmu_sc0041627.1_g000001
rosa_roxburghii	Rroxscaffold_1G00066230 Rroxscaffold_7G00165520
rosa_rugosa	Rorug04G0447300 Rorug06G0315300 Rorug06G0315400
rosa_samantha	Rh5AG078800 Rh5BG073500 Rh5CG086100 Rh5DG074200 Rh5DG336700 Rh6AG428700 Rh6BG473800 Rh6CG441000 Rh6DG427700
rosa_wichuraiana	Rw6G037100

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	7
AccII	CGCG	1 cut(s)	670
AciI	CCGC	1 cut(s)	971
AclWI	GGATC	3 cut(s)	152, 653, 816
AcoI	YGGCCR	1 cut(s)	294
AcsI	RAATTY	3 cut(s)	211, 488, 1008
AcuI	CTGAAG	1 cut(s)	399
AfaI	GTAC	1 cut(s)	962
AfiI	CCNNNNNNNGG	2 cut(s)	602, 797
AgsI	TTSAA	7 cut(s)	22, 218, 242, 262, 386, 413, 892
AjnI	CCWGG	1 cut(s)	595
AloI	GAACNNNNNNTCC	2 cut(s)	356, 388
AluBI	AGCT	6 cut(s)	62, 176, 283, 397, 730, 883
AluI	AGCT	6 cut(s)	62, 176, 283, 397, 730, 883
Alw21I	GWGCWC	1 cut(s)	612
Alw26I	GTCTC	1 cut(s)	90
AlwI	GGATC	3 cut(s)	152, 653, 816
Ama87I	CYCGRG	1 cut(s)	908
AoxI	GGCC	3 cut(s)	272, 294, 1044
ApeKI	GCWGC	2 cut(s)	173, 442
ApoI	RAATTY	3 cut(s)	211, 488, 1008
ArsI	GACNNNNNNTTYG	6 cut(s)	39, 71, 356, 388, 431, 463
Asp700I	GAANNNNTTC	1 cut(s)	774
AspLEI	GCGC	3 cut(s)	348, 642, 672
AspS9I	GGNCC	2 cut(s)	788, 1045
AsuC2I	CCSGG	1 cut(s)	480
AsuHPI	GGTGA	2 cut(s)	43, 617
AsuII	TTCGAA	1 cut(s)	517
AvaI	CYCGRG	1 cut(s)	908
AvaII	GGWCC	1 cut(s)	788
BaeGI	GKGCMC	1 cut(s)	12
BalI	TGGCCA	1 cut(s)	296
BanI	GGYRCC	1 cut(s)	7
BarI	GAAGNNNNNNTAC	2 cut(s)	272, 304
BbsI	GAAGAC	1 cut(s)	409
Bbv12I	GWGCWC	1 cut(s)	612
BbvI	GCAGC	2 cut(s)	185, 454
BccI	CCATC	3 cut(s)	159, 185, 296
BciT130I	CCWGG	1 cut(s)	597
BciVI	GTATCC	1 cut(s)	51
BcnI	CCSGG	1 cut(s)	480
BcoDI	GTCTC	1 cut(s)	90
BfaI	CTAG	1 cut(s)	551
BfoI	RGCGCY	1 cut(s)	349
BfuI	GTATCC	1 cut(s)	51
BisI	GCNGC	2 cut(s)	174, 443
BlsI	GCNGC	2 cut(s)	175, 444
Bme1390I	CCNGG	2 cut(s)	480, 597
Bme18I	GGWCC	1 cut(s)	788
BmeT110I	CYCGRG	1 cut(s)	908
BmgT120I	GGNCC	2 cut(s)	788, 1045
BmiI	GGNNCC	1 cut(s)	9
BmrFI	CCNGG	2 cut(s)	480, 597
BmsI	GCATC	2 cut(s)	574, 682
BpiI	GAAGAC	1 cut(s)	409
BpmI	CTGGAG	1 cut(s)	577
Bpu14I	TTCGAA	1 cut(s)	517
BpuEI	CTTGAG	1 cut(s)	950
BpuMI	CCSGG	1 cut(s)	480
BsaBI	GATNNNNATC	1 cut(s)	696
BsaJI	CCNNGG	4 cut(s)	275, 314, 478, 596
Bsc4I	CCNNNNNNNGG	2 cut(s)	602, 797
Bse1I	ACTGG	1 cut(s)	693
Bse3DI	GCAATG	2 cut(s)	550, 673
Bse8I	GATNNNNATC	1 cut(s)	696
BseBI	CCWGG	1 cut(s)	597
BseDI	CCNNGG	4 cut(s)	275, 314, 478, 596
BseGI	GGATG	3 cut(s)	147, 151, 697
BseJI	GATNNNNATC	1 cut(s)	696
BseLI	CCNNNNNNNGG	2 cut(s)	602, 797
BseMI	GCAATG	2 cut(s)	550, 673
BseMII	CTCAG	2 cut(s)	360, 389
BseNI	ACTGG	1 cut(s)	693
BseRI	GAGGAG	1 cut(s)	95
BseSI	GKGCMC	1 cut(s)	12
BseXI	GCAGC	2 cut(s)	185, 454
Bsh1236I	CGCG	1 cut(s)	670
BshFI	GGCC	3 cut(s)	274, 296, 1046
BshNI	GGYRCC	1 cut(s)	7
BsiHKAI	GWGCWC	1 cut(s)	612
BsiHKCI	CYCGRG	1 cut(s)	908
BsiSI	CCGG	1 cut(s)	480
BslFI	GGGAC	1 cut(s)	575
BslI	CCNNNNNNNGG	2 cut(s)	602, 797
BsmAI	GTCTC	1 cut(s)	90
BsmFI	GGGAC	1 cut(s)	575
BsnI	GGCC	3 cut(s)	274, 296, 1046
BsoBI	CYCGRG	1 cut(s)	908
Bsp119I	TTCGAA	1 cut(s)	517
Bsp1286I	GDGCHC	2 cut(s)	12, 612
Bsp143I	GATC	6 cut(s)	144, 547, 658, 697, 821, 925
BspACI	CCGC	1 cut(s)	971
BspANI	GGCC	3 cut(s)	274, 296, 1046
BspCNI	CTCAG	2 cut(s)	361, 390
BspFNI	CGCG	1 cut(s)	670
BspHI	TCATGA	1 cut(s)	1012
BspLI	GGNNCC	1 cut(s)	9
BspPI	GGATC	3 cut(s)	152, 653, 816
BspQI	GCTCTTC	1 cut(s)	519
BspT104I	TTCGAA	1 cut(s)	517
BspT107I	GGYRCC	1 cut(s)	7
BsrDI	GCAATG	2 cut(s)	550, 673
BsrI	ACTGG	1 cut(s)	693
BssECI	CCNNGG	4 cut(s)	275, 314, 478, 596
BssMI	GATC	6 cut(s)	144, 547, 658, 697, 821, 925
BssT1I	CCWWGG	1 cut(s)	314
Bst2UI	CCWGG	1 cut(s)	597
Bst4CI	ACNGT	2 cut(s)	408, 767
Bst6I	CTCTTC	3 cut(s)	213, 384, 519
BstBI	TTCGAA	1 cut(s)	517
BstDEI	CTNAG	2 cut(s)	369, 398
BstDSI	CCRYGG	1 cut(s)	275
BstENI	CCTNNNNNAGG	1 cut(s)	600
BstF5I	GGATG	3 cut(s)	147, 151, 697
BstFNI	CGCG	1 cut(s)	670
BstH2I	RGCGCY	1 cut(s)	349
BstHHI	GCGC	3 cut(s)	348, 642, 672
BstKTI	GATC	6 cut(s)	147, 550, 661, 700, 824, 928
BstMAI	GTCTC	1 cut(s)	90
BstMBI	GATC	6 cut(s)	144, 547, 658, 697, 821, 925
BstMWI	GCNNNNNNNGC	8 cut(s)	280, 317, 343, 365, 374, 639, 835, 994
BstNI	CCWGG	1 cut(s)	597
BstNSI	RCATGY	1 cut(s)	997
BstSCI	CCNGG	2 cut(s)	478, 595
BstSLI	GKGCMC	1 cut(s)	12
BstUI	CGCG	1 cut(s)	670
BstV1I	GCAGC	2 cut(s)	185, 454
BstV2I	GAAGAC	1 cut(s)	409
BstX2I	RGATCY	1 cut(s)	821
BstXI	CCANNNNNNTGG	1 cut(s)	52
BstYI	RGATCY	1 cut(s)	821
BsuI	GTATCC	1 cut(s)	51
BsuRI	GGCC	3 cut(s)	274, 296, 1046
BtgI	CCRYGG	1 cut(s)	275
BtsCI	GGATG	3 cut(s)	147, 151, 697
CciI	TCATGA	1 cut(s)	1012
CfoI	GCGC	3 cut(s)	348, 642, 672
Cfr13I	GGNCC	2 cut(s)	788, 1045
CseI	GACGC	3 cut(s)	374, 730, 743
Csp6I	GTAC	1 cut(s)	961
CviAII	CATG	8 cut(s)	136, 706, 725, 826, 854, 958, 994, 1013
CviQI	GTAC	1 cut(s)	961
DdeI	CTNAG	2 cut(s)	369, 398
DpnI	GATC	6 cut(s)	146, 549, 660, 699, 823, 927
DpnII	GATC	6 cut(s)	144, 547, 658, 697, 821, 925
EaeI	YGGCCR	1 cut(s)	294
Eam1104I	CTCTTC	3 cut(s)	213, 384, 519
EarI	CTCTTC	3 cut(s)	213, 384, 519
Eco130I	CCWWGG	1 cut(s)	314
Eco47I	GGWCC	1 cut(s)	788
Eco57I	CTGAAG	1 cut(s)	399
Eco88I	CYCGRG	1 cut(s)	908
EcoNI	CCTNNNNNAGG	1 cut(s)	600
EcoRII	CCWGG	1 cut(s)	595
EcoT14I	CCWWGG	1 cut(s)	314
EcoT22I	ATGCAT	1 cut(s)	498
ErhI	CCWWGG	1 cut(s)	314
FaeI	CATG	8 cut(s)	139, 709, 728, 829, 857, 961, 997, 1016
FaqI	GGGAC	1 cut(s)	575
FatI	CATG	8 cut(s)	135, 705, 724, 825, 853, 957, 993, 1012
FauI	CCCGC	1 cut(s)	964
FauNDI	CATATG	1 cut(s)	655
Fnu4HI	GCNGC	2 cut(s)	174, 443
FokI	GGATG	3 cut(s)	134, 138, 704
Fsp4HI	GCNGC	2 cut(s)	174, 443
FspBI	CTAG	1 cut(s)	551
GlaI	GCGC	3 cut(s)	347, 641, 671
GluI	GCNGC	2 cut(s)	174, 443
GsuI	CTGGAG	1 cut(s)	577
HaeII	RGCGCY	1 cut(s)	349
HaeIII	GGCC	3 cut(s)	274, 296, 1046
HapII	CCGG	1 cut(s)	480
HgaI	GACGC	3 cut(s)	374, 730, 743
HhaI	GCGC	3 cut(s)	348, 642, 672
Hin1II	CATG	8 cut(s)	139, 709, 728, 829, 857, 961, 997, 1016
Hin6I	GCGC	3 cut(s)	346, 640, 670
HinP1I	GCGC	3 cut(s)	346, 640, 670
HinfI	GANTC	4 cut(s)	83, 328, 461, 770
HpaII	CCGG	1 cut(s)	480
HphI	GGTGA	2 cut(s)	43, 617
Hpy166II	GTNNAC	3 cut(s)	34, 533, 1028
Hpy188I	TCNGA	5 cut(s)	75, 451, 460, 583, 808
Hpy188III	TCNNGA	6 cut(s)	131, 568, 779, 798, 929, 1013
Hpy8I	GTNNAC	3 cut(s)	34, 533, 1028
Hpy99I	CGWCG	1 cut(s)	724
HpyAV	CCTTC	4 cut(s)	62, 355, 596, 660
HpyCH4III	ACNGT	2 cut(s)	408, 767
HpyCH4IV	ACGT	1 cut(s)	535
HpyCH4V	TGCA	1 cut(s)	496
HpyF10VI	GCNNNNNNNGC	8 cut(s)	280, 317, 343, 365, 374, 639, 835, 994
HpyF3I	CTNAG	2 cut(s)	369, 398
HpySE526I	ACGT	1 cut(s)	535
Hsp92II	CATG	8 cut(s)	139, 709, 728, 829, 857, 961, 997, 1016
HspAI	GCGC	3 cut(s)	346, 640, 670
Kzo9I	GATC	6 cut(s)	144, 547, 658, 697, 821, 925
LguI	GCTCTTC	1 cut(s)	519
LmnI	GCTCC	3 cut(s)	316, 598, 880
LpnPI	CCDG	9 cut(s)	14, 180, 219, 493, 541, 582, 609, 674, 783
Lsp1109I	GCAGC	2 cut(s)	185, 454
LweI	GCATC	2 cut(s)	574, 682
MaeI	CTAG	1 cut(s)	551
MaeII	ACGT	1 cut(s)	535
MalI	GATC	6 cut(s)	146, 549, 660, 699, 823, 927
MboI	GATC	6 cut(s)	144, 547, 658, 697, 821, 925
MboII	GAAGA	8 cut(s)	230, 398, 401, 414, 506, 638, 842, 946
MflI	RGATCY	1 cut(s)	821
MhlI	GDGCHC	2 cut(s)	12, 612
MlsI	TGGCCA	1 cut(s)	296
MluCI	AATT	8 cut(s)	211, 413, 488, 500, 573, 894, 939, 1008
MluNI	TGGCCA	1 cut(s)	296
MlyI	GAGTC	1 cut(s)	92
MnlI	CCTC	7 cut(s)	22, 73, 214, 336, 552, 861, 1009
Mox20I	TGGCCA	1 cut(s)	296
Mph1103I	ATGCAT	1 cut(s)	498
MroXI	GAANNNNTTC	1 cut(s)	774
MscI	TGGCCA	1 cut(s)	296
MseI	TTAA	2 cut(s)	351, 918
MslI	CAYNNNNRTG	1 cut(s)	956
Msp20I	TGGCCA	1 cut(s)	296
MspA1I	CMGCKG	1 cut(s)	176
MspI	CCGG	1 cut(s)	480
MspR9I	CCNGG	2 cut(s)	480, 597
MvaI	CCWGG	1 cut(s)	597
MvnI	CGCG	1 cut(s)	670
MwoI	GCNNNNNNNGC	8 cut(s)	280, 317, 343, 365, 374, 639, 835, 994
NciI	CCSGG	1 cut(s)	480
NdeI	CATATG	1 cut(s)	655
NdeII	GATC	6 cut(s)	144, 547, 658, 697, 821, 925
NlaIII	CATG	8 cut(s)	139, 709, 728, 829, 857, 961, 997, 1016
NlaIV	GGNNCC	1 cut(s)	9
NsiI	ATGCAT	1 cut(s)	498
NspI	RCATGY	1 cut(s)	997
NspV	TTCGAA	1 cut(s)	517
PagI	TCATGA	1 cut(s)	1012
PciSI	GCTCTTC	1 cut(s)	519
PcsI	WCGNNNNNNNCGW	1 cut(s)	906
PdmI	GAANNNNTTC	1 cut(s)	774
PfeI	GAWTC	3 cut(s)	328, 461, 770
PkrI	GCNGC	2 cut(s)	175, 444
PleI	GAGTC	1 cut(s)	91
PpsI	GAGTC	1 cut(s)	91
Psp6I	CCWGG	1 cut(s)	595
PspGI	CCWGG	1 cut(s)	595
PspN4I	GGNNCC	1 cut(s)	9
PspPI	GGNCC	2 cut(s)	788, 1045
PsuI	RGATCY	1 cut(s)	821
PvuII	CAGCTG	1 cut(s)	176
RsaI	GTAC	1 cut(s)	962
RsaNI	GTAC	1 cut(s)	961
RseI	CAYNNNNRTG	1 cut(s)	956
SapI	GCTCTTC	1 cut(s)	519
SaqAI	TTAA	2 cut(s)	351, 918
SatI	GCNGC	2 cut(s)	174, 443
Sau3AI	GATC	6 cut(s)	144, 547, 658, 697, 821, 925
Sau96I	GGNCC	2 cut(s)	788, 1045
SchI	GAGTC	1 cut(s)	92
ScrFI	CCNGG	2 cut(s)	480, 597
SduI	GDGCHC	2 cut(s)	12, 612
SfaNI	GCATC	2 cut(s)	574, 682
SfuI	TTCGAA	1 cut(s)	517
SinI	GGWCC	1 cut(s)	788
SmiMI	CAYNNNNRTG	1 cut(s)	956
SmlI	CTYRAG	1 cut(s)	929
SmoI	CTYRAG	1 cut(s)	929
Sse9I	AATT	8 cut(s)	211, 413, 488, 500, 573, 894, 939, 1008
SsiI	CCGC	1 cut(s)	971
SspI	AATATT	2 cut(s)	235, 265
SspMI	CTAG	1 cut(s)	551
StyD4I	CCNGG	2 cut(s)	478, 595
StyI	CCWWGG	1 cut(s)	314
TaaI	ACNGT	2 cut(s)	408, 767
TaiI	ACGT	1 cut(s)	538
TaqI	TCGA	5 cut(s)	66, 117, 517, 567, 778
TasI	AATT	8 cut(s)	211, 413, 488, 500, 573, 894, 939, 1008
TatI	WGTACW	1 cut(s)	960
TfiI	GAWTC	3 cut(s)	328, 461, 770
Tru1I	TTAA	2 cut(s)	351, 918
Tru9I	TTAA	2 cut(s)	351, 918
TseI	GCWGC	2 cut(s)	173, 442
TspGWI	ACGGA	1 cut(s)	292
VpaK11BI	GGWCC	1 cut(s)	788
XagI	CCTNNNNNAGG	1 cut(s)	600
XapI	RAATTY	3 cut(s)	211, 488, 1008
XceI	RCATGY	1 cut(s)	997
XcmI	CCANNNNNNNNNTGG	1 cut(s)	680
XmnI	GAANNNNTTC	1 cut(s)	774
XspI	CTAG	1 cut(s)	551
Zsp2I	ATGCAT	1 cut(s)	498

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