Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr17

Orthogroup ID

OG0001357

Physical Location & Seq

Genomic Coordinates Reverse (-)

19977343 .. 19978875

Gene Structure 1533 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD17G1176400.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 867 bp

ATGCAAGGGTCATCACAAGGCTCCTTTCAAGGGTCTACTAGTAATTCACAGGGGGTTTCGTATACCACTGGTGGTGTCCTCACTCAAGTGCCAAGAGGACCATCTTCTTTTGGCCTGCAATCATCTAGCCTATCACAGGGCACTCCATCCAACGGTGGTTCTGTGTCATTTCCATTGTTGCCAATGTCAGTTTCTTCTCCTATGCCAGTATCTTATCCTTTGATTCCTGGAAATCCATATGGTGTCTCTCCATATCCATTTCCACAATATTCTGAGTTCTCAAATGCCTATGGTTTTGTGGGTAATGCTGGTGCTCCAAGGCCCTATTCAAATCCAACTACTGGTTCTCGATCTTTCCGGCCTAACAACAACATGAATGGAAATAGTGGTTTCAGGTCTTCACAAGGGGGAAATAACATGAATACTGGCAGGGGTCCGTCTTCGGGTAACAGACAGAATACTAGGAGTTGGAATTCGTGGTCTGGTCATACTGACACCAGATCAAACATTGTTCCAGAATGTCAGATTTGTTCTAAACGGGGTCATACTGCTCCAAATTGCTGGAAAAGGTTTAACAATGTAAGTTCCAGTGGCTCAGTTGTTGAATGTCAGATTTGTGGAAAGAAGGGACACAGTGCTTTAGATTGCTATCACAGGAATAATTTTGCTTATCAGGGGACTGCACCATCACCAGTGTTAACTGCAATGCAAGCTGAAGCTCAGTCTACTTTCTTACCCAATGATTCCTGGATTGTGGATACAGGGGCATCACATCACATGACTGCTGATGTGAATACTCTTCAGCAAGTTGATACATATGATGGACAAGGTAACCAAGGCTGTGATTTACCACGGAAGGAGCCCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RVT_2 Retrotran_gag_2

Protein Analysis

289

Amino Acids

30.57

Weight (kDa)

8.87

Isoelectric Point (pI)

51.29

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0001357)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G12000
fragaria_vesca	FvH4_3g01360 FvH4_3g01360 FvH4_3g22340 FvH4_5g38692
malus_domestica	MD05G1352800.v1.1 MD05G1354700.v1.1 MD05G1354900.v1.1 MD08G1183700.v1.1 MD09G1228400.v1.1 MD10G1133500.v1.1 MD10G1327400.v1.1 MD12G1211800.v1.1 MD13G1182600.v1.1 MD17G1176400.v1.1 MD17G1211800.v1.1
prunus_persica	Prupe.4G014600_v2.0.a1 Prupe.4G014600_v2.0.a1 Prupe.4G014600_v2.0.a1
pyrus_communis	pycom01g09830 pycom05g15580 pycom05g32000 pycom10g04820 pycom10g27690 pycom111g03470 pycom12g06510 pycom14g19720 pycom15g20870 pycom15g34000 pycom17g07230 pycom17g26290
rosa_chinensis	RchiOBHm_Chr1g0337721 RchiOBHm_Chr2g0111881 RchiOBHm_Chr2g0137981 RchiOBHm_Chr4g0422781 RchiOBHm_Chr5g0001981 RchiOBHm_Chr6g0245811 RchiOBHm_Chr7g0178941
rosa_laevigata	RLG00000030986
rosa_multiflora	Rmu_co8429625.1_g000001 Rmu_sc0000378.1_g000018 Rmu_sc0006008.1_g000007
rosa_roxburghii	Rroxscaffold_1G00071370 Rroxscaffold_1G00074370 Rroxscaffold_4G00281720
rosa_rugosa	Rorug02G0348600 Rorug04G0394100 Rorug04G0394200
rosa_samantha	Rh1AG166900 Rh2BG004000 Rh5CG016600 Rh5DG017200
rosa_wichuraiana	Rw5G001500

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	341
AccI	GTMKAC	3 cut(s)	35, 62, 725
AcsI	RAATTY	1 cut(s)	472
AcuI	CTGAAG	2 cut(s)	735, 785
AfiI	CCNNNNNNNGG	5 cut(s)	30, 136, 152, 341, 443
AgsI	TTSAA	3 cut(s)	29, 330, 605
AhlI	ACTAGT	1 cut(s)	38
AjnI	CCWGG	2 cut(s)	226, 746
AjuI	GAANNNNNNNTTGG	6 cut(s)	175, 207, 310, 328, 342, 360
AleI	CACNNNNGTG	1 cut(s)	86
AluBI	AGCT	2 cut(s)	713, 719
AluI	AGCT	2 cut(s)	713, 719
Alw21I	GWGCWC	1 cut(s)	316
Alw26I	GTCTC	1 cut(s)	250
AoxI	GGCC	3 cut(s)	112, 320, 359
ApoI	RAATTY	1 cut(s)	472
AspS9I	GGNCC	3 cut(s)	98, 321, 434
AsuHPI	GGTGA	1 cut(s)	681
AvaII	GGWCC	2 cut(s)	98, 434
BaeGI	GKGCMC	1 cut(s)	143
BanII	GRGCYC	1 cut(s)	864
BbsI	GAAGAC	2 cut(s)	390, 432
Bbv12I	GWGCWC	1 cut(s)	316
BccI	CCATC	4 cut(s)	109, 154, 694, 815
BciT130I	CCWGG	2 cut(s)	228, 748
BciVI	GTATCC	1 cut(s)	751
BcoDI	GTCTC	1 cut(s)	250
BcuI	ACTAGT	1 cut(s)	38
BfaI	CTAG	3 cut(s)	39, 126, 462
BfuI	GTATCC	1 cut(s)	751
Bme1390I	CCNGG	2 cut(s)	228, 748
Bme18I	GGWCC	2 cut(s)	98, 434
BmgT120I	GGNCC	3 cut(s)	98, 321, 434
BmiI	GGNNCC	3 cut(s)	22, 435, 861
BmrFI	CCNGG	2 cut(s)	228, 748
BmsI	GCATC	1 cut(s)	776
BpiI	GAAGAC	2 cut(s)	390, 432
BpuEI	CTTGAG	1 cut(s)	69
BsaBI	GATNNNNATC	1 cut(s)	648
BsaJI	CCNNGG	3 cut(s)	317, 835, 851
Bsc4I	CCNNNNNNNGG	5 cut(s)	30, 136, 152, 341, 443
Bse1I	ACTGG	6 cut(s)	73, 206, 346, 430, 588, 692
Bse3DI	GCAATG	1 cut(s)	711
Bse8I	GATNNNNATC	1 cut(s)	648
BseBI	CCWGG	2 cut(s)	228, 748
BseDI	CCNNGG	3 cut(s)	317, 835, 851
BseGI	GGATG	1 cut(s)	146
BseJI	GATNNNNATC	1 cut(s)	648
BseLI	CCNNNNNNNGG	5 cut(s)	30, 136, 152, 341, 443
BseMI	GCAATG	1 cut(s)	711
BseMII	CTCAG	3 cut(s)	264, 609, 734
BseNI	ACTGG	6 cut(s)	73, 206, 346, 430, 588, 692
BseSI	GKGCMC	1 cut(s)	143
BsgI	GTGCAG	1 cut(s)	666
BshFI	GGCC	3 cut(s)	114, 322, 361
BsiHKAI	GWGCWC	1 cut(s)	316
BsiSI	CCGG	1 cut(s)	358
BslFI	GGGAC	2 cut(s)	642, 691
BslI	CCNNNNNNNGG	5 cut(s)	30, 136, 152, 341, 443
BsmAI	GTCTC	1 cut(s)	250
BsmFI	GGGAC	2 cut(s)	642, 691
BsnI	GGCC	3 cut(s)	114, 322, 361
Bsp1286I	GDGCHC	3 cut(s)	143, 316, 864
Bsp143I	GATC	2 cut(s)	350, 500
BspANI	GGCC	3 cut(s)	114, 322, 361
BspCNI	CTCAG	3 cut(s)	265, 608, 733
BspLI	GGNNCC	3 cut(s)	22, 435, 861
BsrDI	GCAATG	1 cut(s)	711
BsrI	ACTGG	6 cut(s)	73, 206, 346, 430, 588, 692
BssECI	CCNNGG	3 cut(s)	317, 835, 851
BssMI	GATC	2 cut(s)	350, 500
BssNAI	GTATAC	1 cut(s)	63
BssT1I	CCWWGG	2 cut(s)	317, 835
Bst1107I	GTATAC	1 cut(s)	63
Bst2UI	CCWGG	2 cut(s)	228, 748
Bst4CI	ACNGT	2 cut(s)	155, 635
Bst6I	CTCTTC	1 cut(s)	804
BstC8I	GCNNGC	2 cut(s)	116, 711
BstDEI	CTNAG	3 cut(s)	273, 595, 720
BstDSI	CCRYGG	1 cut(s)	851
BstEII	GGTNACC	1 cut(s)	830
BstENI	CCTNNNNNAGG	1 cut(s)	134
BstF5I	GGATG	1 cut(s)	146
BstKTI	GATC	2 cut(s)	353, 503
BstMAI	GTCTC	1 cut(s)	250
BstMBI	GATC	2 cut(s)	350, 500
BstMWI	GCNNNNNNNGC	1 cut(s)	710
BstNI	CCWGG	2 cut(s)	228, 748
BstPI	GGTNACC	1 cut(s)	830
BstSCI	CCNGG	2 cut(s)	226, 746
BstSLI	GKGCMC	1 cut(s)	143
BstV2I	GAAGAC	2 cut(s)	390, 432
BstXI	CCANNNNNNTGG	1 cut(s)	561
BstZ17I	GTATAC	1 cut(s)	63
BsuI	GTATCC	1 cut(s)	751
BsuRI	GGCC	3 cut(s)	114, 322, 361
BtgI	CCRYGG	1 cut(s)	851
BtsCI	GGATG	1 cut(s)	146
BtsIMutI	CAGTG	4 cut(s)	66, 595, 640, 699
Cac8I	GCNNGC	2 cut(s)	116, 711
Cfr13I	GGNCC	3 cut(s)	98, 321, 434
CviAII	CATG	3 cut(s)	373, 418, 778
DdeI	CTNAG	3 cut(s)	273, 595, 720
DpnI	GATC	2 cut(s)	352, 502
DpnII	GATC	2 cut(s)	350, 500
Eam1104I	CTCTTC	1 cut(s)	804
EarI	CTCTTC	1 cut(s)	804
Eco130I	CCWWGG	2 cut(s)	317, 835
Eco24I	GRGCYC	1 cut(s)	864
Eco47I	GGWCC	2 cut(s)	98, 434
Eco57I	CTGAAG	2 cut(s)	735, 785
Eco91I	GGTNACC	1 cut(s)	830
EcoNI	CCTNNNNNAGG	1 cut(s)	134
EcoO109I	RGGNCCY	1 cut(s)	321
EcoO65I	GGTNACC	1 cut(s)	830
EcoRI	GAATTC	1 cut(s)	472
EcoRII	CCWGG	2 cut(s)	226, 746
EcoT14I	CCWWGG	2 cut(s)	317, 835
EcoT38I	GRGCYC	1 cut(s)	864
ErhI	CCWWGG	2 cut(s)	317, 835
FaeI	CATG	3 cut(s)	376, 421, 781
FaqI	GGGAC	2 cut(s)	642, 691
FatI	CATG	3 cut(s)	372, 417, 777
FauNDI	CATATG	2 cut(s)	238, 817
FblI	GTMKAC	3 cut(s)	35, 62, 725
FokI	GGATG	1 cut(s)	133
FriOI	GRGCYC	1 cut(s)	864
FspBI	CTAG	3 cut(s)	39, 126, 462
HaeIII	GGCC	3 cut(s)	114, 322, 361
HapII	CCGG	1 cut(s)	358
Hin1II	CATG	3 cut(s)	376, 421, 781
HincII	GTYRAC	1 cut(s)	699
HindII	GTYRAC	1 cut(s)	699
HinfI	GANTC	2 cut(s)	223, 743
HpaI	GTTAAC	1 cut(s)	699
HpaII	CCGG	1 cut(s)	358
HphI	GGTGA	1 cut(s)	681
Hpy166II	GTNNAC	4 cut(s)	36, 63, 699, 726
Hpy188I	TCNGA	3 cut(s)	274, 525, 612
Hpy188III	TCNNGA	2 cut(s)	348, 515
Hpy8I	GTNNAC	4 cut(s)	36, 63, 699, 726
HpyAV	CCTTC	2 cut(s)	619, 850
HpyCH4III	ACNGT	2 cut(s)	155, 635
HpyCH4V	TGCA	5 cut(s)	4, 118, 683, 704, 709
HpyF10VI	GCNNNNNNNGC	1 cut(s)	710
HpyF3I	CTNAG	3 cut(s)	273, 595, 720
Hsp92II	CATG	3 cut(s)	376, 421, 781
KspAI	GTTAAC	1 cut(s)	699
Kzo9I	GATC	2 cut(s)	350, 500
LmnI	GCTCC	4 cut(s)	26, 319, 556, 859
LweI	GCATC	1 cut(s)	776
MaeI	CTAG	3 cut(s)	39, 126, 462
MaeIII	GTNAC	2 cut(s)	446, 830
MalI	GATC	2 cut(s)	352, 502
MboI	GATC	2 cut(s)	350, 500
MboII	GAAGA	5 cut(s)	96, 186, 390, 432, 791
MhlI	GDGCHC	3 cut(s)	143, 316, 864
MluCI	AATT	4 cut(s)	43, 472, 556, 661
MmeI	TCCRAC	3 cut(s)	174, 359, 449
MnlI	CCTC	2 cut(s)	89, 89
MseI	TTAA	2 cut(s)	573, 698
MslI	CAYNNNNRTG	1 cut(s)	86
MspI	CCGG	1 cut(s)	358
MspR9I	CCNGG	2 cut(s)	228, 748
MvaI	CCWGG	2 cut(s)	228, 748
MwoI	GCNNNNNNNGC	1 cut(s)	710
NdeI	CATATG	2 cut(s)	238, 817
NdeII	GATC	2 cut(s)	350, 500
NlaIII	CATG	3 cut(s)	376, 421, 781
NlaIV	GGNNCC	3 cut(s)	22, 435, 861
OliI	CACNNNNGTG	1 cut(s)	86
PfeI	GAWTC	2 cut(s)	223, 743
PflMI	CCANNNNNTGG	1 cut(s)	341
PfoI	TCCNGGA	2 cut(s)	226, 746
Psp6I	CCWGG	2 cut(s)	226, 746
PspEI	GGTNACC	1 cut(s)	830
PspGI	CCWGG	2 cut(s)	226, 746
PspN4I	GGNNCC	3 cut(s)	22, 435, 861
PspPI	GGNCC	3 cut(s)	98, 321, 434
RseI	CAYNNNNRTG	1 cut(s)	86
SaqAI	TTAA	2 cut(s)	573, 698
Sau3AI	GATC	2 cut(s)	350, 500
Sau96I	GGNCC	3 cut(s)	98, 321, 434
ScrFI	CCNGG	2 cut(s)	228, 748
SduI	GDGCHC	3 cut(s)	143, 316, 864
SetI	ASST	5 cut(s)	398, 572, 715, 721, 832
SfaNI	GCATC	1 cut(s)	776
SinI	GGWCC	2 cut(s)	98, 434
SmiMI	CAYNNNNRTG	1 cut(s)	86
SmlI	CTYRAG	1 cut(s)	84
SmoI	CTYRAG	1 cut(s)	84
SpeI	ACTAGT	1 cut(s)	38
Sse9I	AATT	4 cut(s)	43, 472, 556, 661
SspI	AATATT	1 cut(s)	269
SspMI	CTAG	3 cut(s)	39, 126, 462
StyD4I	CCNGG	2 cut(s)	226, 746
StyI	CCWWGG	2 cut(s)	317, 835
TaaI	ACNGT	2 cut(s)	155, 635
TaqI	TCGA	1 cut(s)	349
TasI	AATT	4 cut(s)	43, 472, 556, 661
TfiI	GAWTC	2 cut(s)	223, 743
Tru1I	TTAA	2 cut(s)	573, 698
Tru9I	TTAA	2 cut(s)	573, 698
TscAI	CASTG	4 cut(s)	73, 595, 640, 699
TspDTI	ATGAA	2 cut(s)	389, 434
TspGWI	ACGGA	1 cut(s)	426
TspRI	CASTG	4 cut(s)	73, 595, 640, 699
Van91I	CCANNNNNTGG	1 cut(s)	341
VpaK11BI	GGWCC	2 cut(s)	98, 434
XagI	CCTNNNNNAGG	1 cut(s)	134
XapI	RAATTY	1 cut(s)	472
XmiI	GTMKAC	3 cut(s)	35, 62, 725
XspI	CTAG	3 cut(s)	39, 126, 462

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