Basic Information

Type: gene

Biological Identity

Species

pyrus_communis

Chromosome

tig00000039

Orthogroup ID

OG0002402

Physical Location & Seq

Genomic Coordinates Forward (+)

33335 .. 34282

Gene Structure 948 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

pycom39g00040.4

Sequence Viewer

CDS Protein Promoter (2k)

Length: 822 bp

ATGGTTGGAAGCACGTTCGCGAAAATACTCGACAAACATTGCCTAGAGGGGCATAATTTCCCAACCTGGTATCGTAATGTCAAGATTCTCCTAACATTGGAGAAGATCATTTACGTACTTGACAAGCCTCTTCCTGACATACCTCTTGGCCCTGAGGCCACAGAGGATGAACGTGCTAAGTATGACAAGCACGTTGACGATGATACACAAGCCAAGTGCTATCTGTTGGCTTCTATGAATGAGGAGCTACAGAGACAGCACGAGGGCATGGACAGTGCATTTTCCATAATACTCCATCTTACGGAGTTATATGGTGAAGGGACGGTCAAAGGGGCTCCAGTGCATCAACATGTACTGAAGATGATAGGATTCATAGAACAACTGGAGAACCTAGGTACTCCACTTGACGGGGAATTGGCCCAGGACTTTATATTGGCTTCTCTTCCTGATTCATTTTCACAGTTCGTAATGAACTACAACATGAATAAGATGGATCATACTCTCTCTGAGTTACTAAATATGTTAGTAACTGCTGAGAAGACTATGAAAGAGAACGTTGTAGGGACTGTTGCAGTAGCCTACAACAAGCCATCCTCTTCCAATCCTAAGCCGTATGGCAAAGGAAAGGGGAAGGAGATAAAGTCTCCCACTCCTAAGCCGAAAGAAGGAGTGAAGAAAAAGAAAAAGGAAATGGAGCCCAAGGGGACTTGCCACTGGTGCGAGATTTATACACTAGGGATCGTTCTGGACCGGGGATTAGGAGGGATTGTTAATCACTTGGATTTGACTCAAAAACGTAAAACTAAACACTTAAAACATTAA

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

Retrotran_gag_2

Protein Analysis

274

Amino Acids

30.74

Weight (kDa)

7.2

Isoelectric Point (pI)

26.88

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

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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

Orthologous Genes (Group: OG0002402)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_5g29991
malus_domestica	MD00G1044200.v1.1
prunus_persica	Prupe.2G062600_v2.0.a1 Prupe.2G064700_v2.0.a1 Prupe.6G167800_v2.0.a1
pyrus_communis	pycom13g29530 pycom17g02500 pycom39g00040 pycom976g00080
rosa_chinensis	RchiOBHm_Chr1g0376911 RchiOBHm_Chr1g0379561 RchiOBHm_Chr2g0165661 RchiOBHm_Chr2g0176521
rosa_multiflora	Rmu_sc0000070.1_g000011 Rmu_sc0000555.1_g000020 Rmu_sc0001291.1_g000051 Rmu_sc0001306.1_g000003 Rmu_sc0005142.1_g000016 Rmu_ssc0000389.1_g000014
rosa_roxburghii	Rroxscaffold_2G00096870 Rroxscaffold_5G00384810 Rroxscaffold_6G00394930
rosa_samantha	Rh1CG138000 Rh1CG192400 Rh7BG220700
rosa_wichuraiana	Rw0G002230 Rw0G012080 Rw1G007200 Rw1G008660 Rw1G011890 Rw2G018430 Rw3G008190 Rw3G020340 Rw3G024460 Rw4G000210 Rw5G007300 Rw5G015820 Rw5G032410 Rw5G048130 Rw5G049610 Rw7G025770 Rw7G028470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	20
AclI	AACGTT	1 cut(s)	555
AclWI	GGATC	2 cut(s)	501, 746
AcuI	CTGAAG	1 cut(s)	377
AfaI	GTAC	3 cut(s)	117, 354, 397
AfiI	CCNNNNNNNGG	4 cut(s)	97, 301, 407, 665
AflIII	ACRYGT	1 cut(s)	349
AjnI	CCWGG	2 cut(s)	65, 420
AluBI	AGCT	1 cut(s)	247
AluI	AGCT	1 cut(s)	247
Alw26I	GTCTC	2 cut(s)	247, 648
AlwI	GGATC	2 cut(s)	501, 746
AoxI	GGCC	3 cut(s)	148, 156, 417
AspA2I	CCTAGG	1 cut(s)	391
AspS9I	GGNCC	3 cut(s)	149, 418, 748
AsuC2I	CCSGG	1 cut(s)	752
AsuHPI	GGTGA	1 cut(s)	326
AvaII	GGWCC	1 cut(s)	748
AvrII	CCTAGG	1 cut(s)	391
AxyI	CCTNAGG	1 cut(s)	153
BanII	GRGCYC	2 cut(s)	337, 699
BarI	GAAGNNNNNNTAC	2 cut(s)	95, 127
BauI	CACGAG	1 cut(s)	260
BbsI	GAAGAC	1 cut(s)	545
BccI	CCATC	3 cut(s)	303, 484, 598
BceAI	ACGGC	1 cut(s)	595
BciT130I	CCWGG	2 cut(s)	67, 422
BcnI	CCSGG	1 cut(s)	752
BcoDI	GTCTC	2 cut(s)	247, 648
BfaI	CTAG	3 cut(s)	44, 392, 734
BfmI	CTRYAG	1 cut(s)	248
BlnI	CCTAGG	1 cut(s)	391
Bme1390I	CCNGG	3 cut(s)	67, 422, 752
Bme18I	GGWCC	1 cut(s)	748
BmgT120I	GGNCC	3 cut(s)	149, 418, 748
BmiI	GGNNCC	2 cut(s)	336, 696
BmrFI	CCNGG	3 cut(s)	67, 422, 752
BmsI	GCATC	1 cut(s)	352
BpiI	GAAGAC	1 cut(s)	545
BpmI	CTGGAG	2 cut(s)	321, 404
Bpu10I	CCTNAGC	2 cut(s)	606, 654
BpuMI	CCSGG	1 cut(s)	752
BsaAI	YACGTR	1 cut(s)	115
BsaJI	CCNNGG	4 cut(s)	391, 420, 699, 751
BsaXI	ACNNNNNCTCC	4 cut(s)	626, 656, 753, 783
Bsc4I	CCNNNNNNNGG	4 cut(s)	97, 301, 407, 665
Bse1I	ACTGG	3 cut(s)	338, 387, 719
Bse21I	CCTNAGG	1 cut(s)	153
Bse3DI	GCAATG	1 cut(s)	37
BseBI	CCWGG	2 cut(s)	67, 422
BseDI	CCNNGG	4 cut(s)	391, 420, 699, 751
BseGI	GGATG	2 cut(s)	172, 590
BseLI	CCNNNNNNNGG	4 cut(s)	97, 301, 407, 665
BseMI	GCAATG	1 cut(s)	37
BseMII	CTCAG	3 cut(s)	144, 498, 525
BseNI	ACTGG	3 cut(s)	338, 387, 719
BseRI	GAGGAG	1 cut(s)	257
Bsh1236I	CGCG	1 cut(s)	20
BshFI	GGCC	3 cut(s)	150, 158, 419
BsiSI	CCGG	1 cut(s)	751
BslFI	GGGAC	3 cut(s)	334, 577, 718
BslI	CCNNNNNNNGG	4 cut(s)	97, 301, 407, 665
BsmAI	GTCTC	2 cut(s)	247, 648
BsmFI	GGGAC	3 cut(s)	334, 577, 718
BsnI	GGCC	3 cut(s)	150, 158, 419
Bsp1286I	GDGCHC	2 cut(s)	337, 699
Bsp143I	GATC	3 cut(s)	105, 493, 738
Bsp68I	TCGCGA	1 cut(s)	20
BspANI	GGCC	3 cut(s)	150, 158, 419
BspCNI	CTCAG	3 cut(s)	145, 499, 526
BspFNI	CGCG	1 cut(s)	20
BspLI	GGNNCC	2 cut(s)	336, 696
BspPI	GGATC	2 cut(s)	501, 746
BsrDI	GCAATG	1 cut(s)	37
BsrI	ACTGG	3 cut(s)	338, 387, 719
BssECI	CCNNGG	4 cut(s)	391, 420, 699, 751
BssMI	GATC	3 cut(s)	105, 493, 738
BssSI	CACGAG	1 cut(s)	260
BssT1I	CCWWGG	2 cut(s)	391, 699
Bst2BI	CACGAG	1 cut(s)	260
Bst2UI	CCWGG	2 cut(s)	67, 422
Bst4CI	ACNGT	4 cut(s)	275, 325, 462, 568
Bst6I	CTCTTC	3 cut(s)	135, 447, 601
BstBAI	YACGTR	1 cut(s)	115
BstDEI	CTNAG	6 cut(s)	153, 177, 507, 534, 606, 654
BstF5I	GGATG	2 cut(s)	172, 590
BstFNI	CGCG	1 cut(s)	20
BstKTI	GATC	3 cut(s)	108, 496, 741
BstMAI	GTCTC	2 cut(s)	247, 648
BstMBI	GATC	3 cut(s)	105, 493, 738
BstMWI	GCNNNNNNNGC	1 cut(s)	717
BstNI	CCWGG	2 cut(s)	67, 422
BstNSI	RCATGY	1 cut(s)	353
BstSCI	CCNGG	3 cut(s)	65, 420, 750
BstSFI	CTRYAG	1 cut(s)	248
BstSNI	TACGTA	1 cut(s)	115
BstUI	CGCG	1 cut(s)	20
BstV2I	GAAGAC	1 cut(s)	545
Bsu36I	CCTNAGG	1 cut(s)	153
BsuRI	GGCC	3 cut(s)	150, 158, 419
BtsCI	GGATG	2 cut(s)	172, 590
BtsIMutI	CAGTG	3 cut(s)	280, 345, 712
BtuMI	TCGCGA	1 cut(s)	20
Cfr13I	GGNCC	3 cut(s)	149, 418, 748
CsiI	ACCWGGT	1 cut(s)	65
Csp6I	GTAC	3 cut(s)	116, 353, 396
CviAII	CATG	3 cut(s)	268, 350, 481
CviQI	GTAC	3 cut(s)	116, 353, 396
DdeI	CTNAG	6 cut(s)	153, 177, 507, 534, 606, 654
DpnI	GATC	3 cut(s)	107, 495, 740
DpnII	GATC	3 cut(s)	105, 493, 738
Eam1104I	CTCTTC	3 cut(s)	135, 447, 601
EarI	CTCTTC	3 cut(s)	135, 447, 601
Eco105I	TACGTA	1 cut(s)	115
Eco130I	CCWWGG	2 cut(s)	391, 699
Eco24I	GRGCYC	2 cut(s)	337, 699
Eco47I	GGWCC	1 cut(s)	748
Eco57I	CTGAAG	1 cut(s)	377
Eco81I	CCTNAGG	1 cut(s)	153
EcoRII	CCWGG	2 cut(s)	65, 420
EcoT14I	CCWWGG	2 cut(s)	391, 699
EcoT38I	GRGCYC	2 cut(s)	337, 699
ErhI	CCWWGG	2 cut(s)	391, 699
FaeI	CATG	3 cut(s)	271, 353, 484
FaqI	GGGAC	3 cut(s)	334, 577, 718
FatI	CATG	3 cut(s)	267, 349, 480
FokI	GGATG	2 cut(s)	179, 577
FriOI	GRGCYC	2 cut(s)	337, 699
FspBI	CTAG	3 cut(s)	44, 392, 734
GsuI	CTGGAG	2 cut(s)	321, 404
HaeIII	GGCC	3 cut(s)	150, 158, 419
HapII	CCGG	1 cut(s)	751
Hin1II	CATG	3 cut(s)	271, 353, 484
HincII	GTYRAC	1 cut(s)	196
HindII	GTYRAC	1 cut(s)	196
HinfI	GANTC	4 cut(s)	85, 369, 449, 787
HpaII	CCGG	1 cut(s)	751
HphI	GGTGA	1 cut(s)	326
Hpy166II	GTNNAC	1 cut(s)	196
Hpy188I	TCNGA	1 cut(s)	508
Hpy188III	TCNNGA	5 cut(s)	19, 82, 134, 446, 746
Hpy8I	GTNNAC	1 cut(s)	196
HpyAV	CCTTC	3 cut(s)	311, 625, 659
HpyCH4III	ACNGT	4 cut(s)	275, 325, 462, 568
HpyCH4IV	ACGT	6 cut(s)	14, 114, 172, 192, 555, 796
HpyCH4V	TGCA	3 cut(s)	278, 343, 572
HpyF10VI	GCNNNNNNNGC	1 cut(s)	717
HpyF3I	CTNAG	6 cut(s)	153, 177, 507, 534, 606, 654
HpySE526I	ACGT	6 cut(s)	14, 114, 172, 192, 555, 796
Hsp92II	CATG	3 cut(s)	271, 353, 484
Kzo9I	GATC	3 cut(s)	105, 493, 738
LmnI	GCTCC	3 cut(s)	244, 340, 694
LweI	GCATC	1 cut(s)	352
MabI	ACCWGGT	1 cut(s)	65
MaeI	CTAG	3 cut(s)	44, 392, 734
MaeII	ACGT	6 cut(s)	14, 114, 172, 192, 555, 796
MaeIII	GTNAC	2 cut(s)	510, 526
MalI	GATC	3 cut(s)	107, 495, 740
MboI	GATC	3 cut(s)	105, 493, 738
MboII	GAAGA	7 cut(s)	115, 122, 370, 434, 550, 588, 685
MhlI	GDGCHC	2 cut(s)	337, 699
MluCI	AATT	2 cut(s)	55, 413
MlyI	GAGTC	1 cut(s)	781
MnlI	CCTC	9 cut(s)	40, 138, 148, 153, 157, 235, 256, 604, 755
MseI	TTAA	3 cut(s)	771, 812, 820
MslI	CAYNNNNRTG	1 cut(s)	348
MspI	CCGG	1 cut(s)	751
MspR9I	CCNGG	3 cut(s)	67, 422, 752
MvaI	CCWGG	2 cut(s)	67, 422
MvnI	CGCG	1 cut(s)	20
MwoI	GCNNNNNNNGC	1 cut(s)	717
NciI	CCSGG	1 cut(s)	752
NdeII	GATC	3 cut(s)	105, 493, 738
NlaIII	CATG	3 cut(s)	271, 353, 484
NlaIV	GGNNCC	2 cut(s)	336, 696
NruI	TCGCGA	1 cut(s)	20
NspI	RCATGY	1 cut(s)	353
PciI	ACATGT	1 cut(s)	349
PfeI	GAWTC	3 cut(s)	85, 369, 449
PleI	GAGTC	1 cut(s)	781
PpsI	GAGTC	1 cut(s)	781
Ppu21I	YACGTR	1 cut(s)	115
PscI	ACATGT	1 cut(s)	349
Psp1406I	AACGTT	1 cut(s)	555
Psp6I	CCWGG	2 cut(s)	65, 420
PspGI	CCWGG	2 cut(s)	65, 420
PspN4I	GGNNCC	2 cut(s)	336, 696
PspPI	GGNCC	3 cut(s)	149, 418, 748
RruI	TCGCGA	1 cut(s)	20
RsaI	GTAC	3 cut(s)	117, 354, 397
RsaNI	GTAC	3 cut(s)	116, 353, 396
RseI	CAYNNNNRTG	1 cut(s)	348
SaqAI	TTAA	3 cut(s)	771, 812, 820
Sau3AI	GATC	3 cut(s)	105, 493, 738
Sau96I	GGNCC	3 cut(s)	149, 418, 748
SchI	GAGTC	1 cut(s)	781
ScrFI	CCNGG	3 cut(s)	67, 422, 752
SduI	GDGCHC	2 cut(s)	337, 699
SexAI	ACCWGGT	1 cut(s)	65
SfaNI	GCATC	1 cut(s)	352
SfcI	CTRYAG	1 cut(s)	248
SinI	GGWCC	1 cut(s)	748
SmiMI	CAYNNNNRTG	1 cut(s)	348
SnaBI	TACGTA	1 cut(s)	115
Sse9I	AATT	2 cut(s)	55, 413
SspMI	CTAG	3 cut(s)	44, 392, 734
StyD4I	CCNGG	3 cut(s)	65, 420, 750
StyI	CCWWGG	2 cut(s)	391, 699
TaaI	ACNGT	4 cut(s)	275, 325, 462, 568
TaiI	ACGT	6 cut(s)	17, 117, 175, 195, 558, 799
TaqI	TCGA	1 cut(s)	30
TasI	AATT	2 cut(s)	55, 413
TatI	WGTACW	1 cut(s)	352
TfiI	GAWTC	3 cut(s)	85, 369, 449
Tru1I	TTAA	3 cut(s)	771, 812, 820
Tru9I	TTAA	3 cut(s)	771, 812, 820
TscAI	CASTG	3 cut(s)	280, 345, 719
TspDTI	ATGAA	7 cut(s)	183, 251, 361, 441, 485, 497, 560
TspGWI	ACGGA	1 cut(s)	317
TspRI	CASTG	3 cut(s)	280, 345, 719
VpaK11BI	GGWCC	1 cut(s)	748
XceI	RCATGY	1 cut(s)	353
XmaJI	CCTAGG	1 cut(s)	391
XspI	CTAG	3 cut(s)	44, 392, 734

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