Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr00

Orthogroup ID

OG0004246

Physical Location & Seq

Genomic Coordinates Reverse (-)

27398033 .. 27399676

Gene Structure 1644 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD00G1128400.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 840 bp

ATGTCGACAAGATCATCTTCATGCCACTTCTTATATGCACAAATCCAGGTCAATGACAAGAAATCAGGGTACATCAAGCTATCCAGAGTTGAGAAATTCATCCTTCTTGTTGGTTCTTATGAAGACAAAATTTTCAAGAAAAGATCAGAACTACGTGACCGTAAACTGAGACGTCTTTGTTATTATAATGATTCTCTAGAGGACGAAGTTGATACTAGAAGTACAATTACTGGTTCGAGCAATAATCAGGTATTCCTCAGTGGAGAAGAATTGGAAGTTTGGTCAGATGGAACGTCTGACATTATGCATTCTCAAGTTGTAGGAAATACAAAGGAGTTGAAGAAAAAATTGAAAGATAACATCAGAAGGAAATCTGATCTGTTCAAGAATGGTGATTTGGGGACTGACAAGGTCCGATTCGCTGTGGGAGGCTATAAGGAAAGATATTACAAATACAAATTTTCTGCAGAAGGTCCAGAGGATATTGAAAGGAAAAGGAAGGAAGTAGTTAAATGCTACACTGAAGGACTGCTCTGGGTTTTATTGTACTATTTTTCGGAGCCCCCATCATGGACATGGTTTTATCCTTTCCATTACGGGCCATTTGCTTCAGACCTCAAGGGCCTCGGTCAGGTGAAAGCGAAGTTTCATAAAGGTTTCCCTTTTAAGCCTATTGATACTCTCATGGCTGTGTTACCTCCAAGAAGCGCTCATGCACTTCCTAAAGATTATCAGAAACTAATGACTGAAGAGAGTTCCGGCATTATTGACTTTTATCCTACTGGTAAGTCCCCCCCCTCTCTCTCCCCTAAGGAATTAGTGAAGCAGTTCTCACCTTAA

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

280

Amino Acids

32.27

Weight (kDa)

9.3

Isoelectric Point (pI)

51.73

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
XRN_M	PF17846	21 - 261	3.2e-74	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: OG0004246)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_7g18720 FvH4_7g18720 FvH4_7g18720 FvH4_7g18720
malus_domestica	MD00G1128400.v1.1 MD11G1172900.v1.1
prunus_persica	Prupe.6G141200_v2.0.a1 Prupe.6G141200_v2.0.a1 Prupe.6G141200_v2.0.a1 Prupe.6G141200_v2.0.a1
pyrus_communis	pycom11g14580 pycom520g00080
rosa_chinensis	RchiOBHm_Chr1g0334231 RchiOBHm_Chr5g0047421 RchiOBHm_Chr5g0047601 RchiOBHm_Chr5g0047631 RchiOBHm_Chr5g0047791 RchiOBHm_Chr5g0047991
rosa_multiflora	Rmu_sc0000148.1_g000001 Rmu_sc0000148.1_g000016 Rmu_sc0003441.1_g000004
rosa_roxburghii	Rroxscaffold_1G00029700 Rroxscaffold_1G00033910
rosa_rugosa	Rorug05G0236400
rosa_samantha	Rh1CG129900 Rh5AG315300 Rh5AG315400 Rh5DG335300 Rh5DG335400
rosa_wichuraiana	Rw0G017980 Rw5G029460 Rw5G029520 Rw5G029550

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	186
AatII	GACGTC	1 cut(s)	175
AccI	GTMKAC	1 cut(s)	5
AcsI	RAATTY	3 cut(s)	95, 129, 458
AcuI	CTGAAG	3 cut(s)	543, 594, 768
AcyI	GRCGYC	1 cut(s)	172
AfaI	GTAC	3 cut(s)	71, 223, 548
AfeI	AGCGCT	1 cut(s)	709
AfiI	CCNNNNNNNGG	2 cut(s)	570, 631
AgsI	TTSAA	5 cut(s)	136, 340, 352, 385, 488
AjnI	CCWGG	1 cut(s)	45
AjuI	GAANNNNNNNTTGG	2 cut(s)	380, 412
AluBI	AGCT	1 cut(s)	79
AluI	AGCT	1 cut(s)	79
Alw26I	GTCTC	1 cut(s)	163
Aor51HI	AGCGCT	1 cut(s)	709
AoxI	GGCC	2 cut(s)	599, 622
ApoI	RAATTY	3 cut(s)	95, 129, 458
Asp700I	GAANNNNTTC	1 cut(s)	827
AspLEI	GCGC	1 cut(s)	710
AspS9I	GGNCC	4 cut(s)	412, 473, 599, 622
AsuHPI	GGTGA	3 cut(s)	404, 646, 825
AvaII	GGWCC	2 cut(s)	412, 473
AxyI	CCTNAGG	1 cut(s)	810
BanII	GRGCYC	1 cut(s)	564
BarI	GAAGNNNNNNTAC	2 cut(s)	211, 243
BbsI	GAAGAC	1 cut(s)	129
BccI	CCATC	2 cut(s)	281, 574
BciT130I	CCWGG	1 cut(s)	47
BcoDI	GTCTC	1 cut(s)	163
BfaI	CTAG	2 cut(s)	197, 216
BfmI	CTRYAG	1 cut(s)	465
BfoI	RGCGCY	1 cut(s)	711
Bme1390I	CCNGG	1 cut(s)	47
Bme18I	GGWCC	2 cut(s)	412, 473
BmgT120I	GGNCC	4 cut(s)	412, 473, 599, 622
BmiI	GGNNCC	1 cut(s)	561
BmrFI	CCNGG	1 cut(s)	47
BpiI	GAAGAC	1 cut(s)	129
BpuEI	CTTGAG	2 cut(s)	297, 602
BsaAI	YACGTR	1 cut(s)	155
BsaHI	GRCGYC	1 cut(s)	172
BsaJI	CCNNGG	1 cut(s)	625
Bsc4I	CCNNNNNNNGG	2 cut(s)	570, 631
Bse1I	ACTGG	2 cut(s)	235, 787
Bse21I	CCTNAGG	1 cut(s)	810
BseBI	CCWGG	1 cut(s)	47
BseDI	CCNNGG	1 cut(s)	625
BseGI	GGATG	1 cut(s)	99
BseLI	CCNNNNNNNGG	2 cut(s)	570, 631
BseMII	CTCAG	2 cut(s)	158, 271
BseNI	ACTGG	2 cut(s)	235, 787
BshFI	GGCC	2 cut(s)	601, 624
BsiSI	CCGG	1 cut(s)	759
BslFI	GGGAC	2 cut(s)	415, 775
BslI	CCNNNNNNNGG	2 cut(s)	570, 631
BsmAI	GTCTC	1 cut(s)	163
BsmBI	CGTCTC	1 cut(s)	163
BsmFI	GGGAC	2 cut(s)	415, 775
BsmI	GAATGC	1 cut(s)	307
BsnI	GGCC	2 cut(s)	601, 624
Bsp1286I	GDGCHC	1 cut(s)	564
Bsp143I	GATC	3 cut(s)	11, 143, 376
BspANI	GGCC	2 cut(s)	601, 624
BspCNI	CTCAG	2 cut(s)	159, 270
BspLI	GGNNCC	1 cut(s)	561
BspMAI	CTGCAG	1 cut(s)	469
BsrI	ACTGG	2 cut(s)	235, 787
BssECI	CCNNGG	1 cut(s)	625
BssMI	GATC	3 cut(s)	11, 143, 376
BssNI	GRCGYC	1 cut(s)	172
Bst2UI	CCWGG	1 cut(s)	47
Bst4CI	ACNGT	1 cut(s)	161
Bst6I	CTCTTC	1 cut(s)	744
BstACI	GRCGYC	1 cut(s)	172
BstBAI	YACGTR	1 cut(s)	155
BstDEI	CTNAG	3 cut(s)	167, 257, 810
BstENI	CCTNNNNNAGG	1 cut(s)	629
BstF5I	GGATG	1 cut(s)	99
BstH2I	RGCGCY	1 cut(s)	711
BstHHI	GCGC	1 cut(s)	710
BstKTI	GATC	3 cut(s)	14, 146, 379
BstMAI	GTCTC	1 cut(s)	163
BstMBI	GATC	3 cut(s)	11, 143, 376
BstNI	CCWGG	1 cut(s)	47
BstSCI	CCNGG	1 cut(s)	45
BstSFI	CTRYAG	1 cut(s)	465
BstV2I	GAAGAC	1 cut(s)	129
Bsu36I	CCTNAGG	1 cut(s)	810
BsuRI	GGCC	2 cut(s)	601, 624
BtsCI	GGATG	1 cut(s)	99
BtsIMutI	CAGTG	2 cut(s)	265, 519
CfoI	GCGC	1 cut(s)	710
Cfr13I	GGNCC	4 cut(s)	412, 473, 599, 622
Csp6I	GTAC	3 cut(s)	70, 222, 547
CviAII	CATG	5 cut(s)	21, 570, 576, 685, 713
CviJI	RGCY	7 cut(s)	79, 432, 562, 601, 624, 670, 689
CviKI_1	RGCY	7 cut(s)	79, 432, 562, 601, 624, 670, 689
CviQI	GTAC	3 cut(s)	70, 222, 547
DdeI	CTNAG	3 cut(s)	167, 257, 810
DpnI	GATC	3 cut(s)	13, 145, 378
DpnII	GATC	3 cut(s)	11, 143, 376
Eam1104I	CTCTTC	1 cut(s)	744
EarI	CTCTTC	1 cut(s)	744
Eco24I	GRGCYC	1 cut(s)	564
Eco47I	GGWCC	2 cut(s)	412, 473
Eco47III	AGCGCT	1 cut(s)	709
Eco57I	CTGAAG	3 cut(s)	543, 594, 768
Eco81I	CCTNAGG	1 cut(s)	810
EcoNI	CCTNNNNNAGG	1 cut(s)	629
EcoO109I	RGGNCCY	1 cut(s)	622
EcoRII	CCWGG	1 cut(s)	45
EcoT22I	ATGCAT	1 cut(s)	309
EcoT38I	GRGCYC	1 cut(s)	564
Esp3I	CGTCTC	1 cut(s)	163
FaeI	CATG	5 cut(s)	24, 573, 579, 688, 716
FalI	AAGNNNNNCTT	1 cut(s)	33
FaqI	GGGAC	2 cut(s)	415, 775
FatI	CATG	5 cut(s)	20, 569, 575, 684, 712
FblI	GTMKAC	1 cut(s)	5
FokI	GGATG	1 cut(s)	86
FriOI	GRGCYC	1 cut(s)	564
FspBI	CTAG	2 cut(s)	197, 216
GlaI	GCGC	1 cut(s)	709
HaeII	RGCGCY	1 cut(s)	711
HaeIII	GGCC	2 cut(s)	601, 624
HapII	CCGG	1 cut(s)	759
HhaI	GCGC	1 cut(s)	710
Hin1I	GRCGYC	1 cut(s)	172
Hin1II	CATG	5 cut(s)	24, 573, 579, 688, 716
Hin6I	GCGC	1 cut(s)	708
HinP1I	GCGC	1 cut(s)	708
HincII	GTYRAC	1 cut(s)	6
HindII	GTYRAC	1 cut(s)	6
HinfI	GANTC	2 cut(s)	191, 417
HpaII	CCGG	1 cut(s)	759
HphI	GGTGA	3 cut(s)	404, 646, 825
Hpy166II	GTNNAC	2 cut(s)	6, 164
Hpy188I	TCNGA	9 cut(s)	148, 286, 298, 365, 376, 416, 559, 613, 735
Hpy188III	TCNNGA	5 cut(s)	84, 136, 197, 385, 476
Hpy8I	GTNNAC	2 cut(s)	6, 164
HpyAV	CCTTC	5 cut(s)	113, 360, 464, 493, 518
HpyCH4III	ACNGT	1 cut(s)	161
HpyCH4IV	ACGT	3 cut(s)	154, 172, 293
HpyCH4V	TGCA	4 cut(s)	38, 307, 467, 716
HpyF3I	CTNAG	3 cut(s)	167, 257, 810
HpySE526I	ACGT	3 cut(s)	154, 172, 293
Hsp92I	GRCGYC	1 cut(s)	172
Hsp92II	CATG	5 cut(s)	24, 573, 579, 688, 716
HspAI	GCGC	1 cut(s)	708
Kzo9I	GATC	3 cut(s)	11, 143, 376
LmnI	GCTCC	1 cut(s)	559
MaeI	CTAG	2 cut(s)	197, 216
MaeII	ACGT	3 cut(s)	154, 172, 293
MaeIII	GTNAC	2 cut(s)	155, 693
MalI	GATC	3 cut(s)	13, 145, 378
MboI	GATC	3 cut(s)	11, 143, 376
MboII	GAAGA	5 cut(s)	9, 134, 278, 352, 761
MhlI	GDGCHC	1 cut(s)	564
MluCI	AATT	7 cut(s)	95, 129, 225, 269, 347, 458, 815
MnlI	CCTC	8 cut(s)	193, 266, 422, 472, 626, 635, 708, 808
Mph1103I	ATGCAT	1 cut(s)	309
MroXI	GAANNNNTTC	1 cut(s)	827
MseI	TTAA	3 cut(s)	510, 666, 838
MslI	CAYNNNNRTG	3 cut(s)	19, 574, 689
MspI	CCGG	1 cut(s)	759
MspR9I	CCNGG	1 cut(s)	47
Mva1269I	GAATGC	1 cut(s)	307
MvaI	CCWGG	1 cut(s)	47
NdeII	GATC	3 cut(s)	11, 143, 376
NlaIII	CATG	5 cut(s)	24, 573, 579, 688, 716
NlaIV	GGNNCC	1 cut(s)	561
NmuCI	GTSAC	1 cut(s)	155
NsiI	ATGCAT	1 cut(s)	309
PctI	GAATGC	1 cut(s)	307
PdmI	GAANNNNTTC	1 cut(s)	827
PfeI	GAWTC	2 cut(s)	191, 417
PflFI	GACNNNGTC	1 cut(s)	410
Ppu21I	YACGTR	1 cut(s)	155
PsiI	TTATAA	1 cut(s)	186
Psp6I	CCWGG	1 cut(s)	45
PspGI	CCWGG	1 cut(s)	45
PspN4I	GGNNCC	1 cut(s)	561
PspPI	GGNCC	4 cut(s)	412, 473, 599, 622
PstI	CTGCAG	1 cut(s)	469
PsyI	GACNNNGTC	1 cut(s)	410
RsaI	GTAC	3 cut(s)	71, 223, 548
RsaNI	GTAC	3 cut(s)	70, 222, 547
RseI	CAYNNNNRTG	3 cut(s)	19, 574, 689
SalI	GTCGAC	1 cut(s)	4
SaqAI	TTAA	3 cut(s)	510, 666, 838
Sau3AI	GATC	3 cut(s)	11, 143, 376
Sau96I	GGNCC	4 cut(s)	412, 473, 599, 622
ScrFI	CCNGG	1 cut(s)	47
SduI	GDGCHC	1 cut(s)	564
SfcI	CTRYAG	1 cut(s)	465
SinI	GGWCC	2 cut(s)	412, 473
SmiMI	CAYNNNNRTG	3 cut(s)	19, 574, 689
SmlI	CTYRAG	2 cut(s)	312, 617
SmoI	CTYRAG	2 cut(s)	312, 617
Sse9I	AATT	7 cut(s)	95, 129, 225, 269, 347, 458, 815
SspMI	CTAG	2 cut(s)	197, 216
StyD4I	CCNGG	1 cut(s)	45
TaaI	ACNGT	1 cut(s)	161
TaiI	ACGT	3 cut(s)	157, 175, 296
TaqI	TCGA	2 cut(s)	5, 236
TaqII	GACCGA	1 cut(s)	617
TasI	AATT	7 cut(s)	95, 129, 225, 269, 347, 458, 815
TatI	WGTACW	2 cut(s)	221, 546
TfiI	GAWTC	2 cut(s)	191, 417
Tru1I	TTAA	3 cut(s)	510, 666, 838
Tru9I	TTAA	3 cut(s)	510, 666, 838
TscAI	CASTG	2 cut(s)	265, 526
TseFI	GTSAC	1 cut(s)	155
Tsp45I	GTSAC	1 cut(s)	155
TspDTI	ATGAA	4 cut(s)	9, 88, 135, 638
TspRI	CASTG	2 cut(s)	265, 526
Tth111I	GACNNNGTC	1 cut(s)	410
VpaK11BI	GGWCC	2 cut(s)	412, 473
XagI	CCTNNNNNAGG	1 cut(s)	629
XapI	RAATTY	3 cut(s)	95, 129, 458
XbaI	TCTAGA	1 cut(s)	196
XcmI	CCANNNNNNNNNTGG	1 cut(s)	573
XmiI	GTMKAC	1 cut(s)	5
XmnI	GAANNNNTTC	1 cut(s)	827
XspI	CTAG	2 cut(s)	197, 216
ZraI	GACGTC	1 cut(s)	173
Zsp2I	ATGCAT	1 cut(s)	309

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