Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr16

Orthogroup ID

OG0005125

Physical Location & Seq

Genomic Coordinates Forward (+)

38703653 .. 38715075

Gene Structure 11423 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD16G1282700.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1107 bp

ATGGGTTCTAATCATCCACCAAAGCGACAATCCACACACATACCCGATAACTTTAACTCTTTGGATCAGGTTATTTCGGCATTGAGAGAAGCTGGCCTTGAATCATCAAATTTAATACTTGGTGTCGACTTCACAAAGAGCAATGAATGGACAGGAAGATATTCATTCCATAGGAAAAGCCGTCATGCAATTGGTAGCACATCTAATCCTTACGAGCATGCGATCTCAATAATTGGCCGTATATTATCTCCATTTGATGAAGATAATCTAATACCTTGTTTTGGATTCGGCGAAGCATCAACGCATGATCAATGCGTGTTCAGTTTCTATCCTGAGGGCCGATATTGTCATGGTTTCGAGGAAGCTCTTGCACGATATAGGGAGATTGTTCCCTTTTTGAAGTTGTCAGGTCCGACCTCATTTGCCCCCATAATTGATGCGGCAATTGACATTGTTGAAAAAAGCAATGGGCAATACCACGTTCTTGTCATTATTGCAGATGGACAGGTTACTAGGAGCCCTGATACTCCTCCTGGAAGATTCAGTCCACAAGAACAAGCGACTATAAATTCCGTTGTTGCAGCTAGTCAATATTCTCTCTCAATTATCTTGGTTGGAGTTGGGGATGGACCATGGGATGCAATGCAGCAATTTGATGATTACATTCCACAGCGCTCATTTGACAACTTCCAGTTTGTCAACTTCACCAAAATCATGTCAGACAACACAAATGCATCAAAGAAGGAAGCAGCGTTTGCACTTGCTGCCCTCATGGAAATTCCATTTCAATACAGAGCCACCCAAAGGCTTCATTTAGTCAGTCCTGAACCTGTAGGTGGTCCTCGTACAAGGCCACTTCCACCTCCATGTGAGGTGATGAATCATGATATTGCAGTTAATTCAATCCCACGCATGGTGAACATTCAGAAAGTCAAGCCAACAGCTCCTACAGCTCCCGAGGAACCGGTCTGTCCCATTTGCCTGACAAATCCAAAGGATATGGCTTTCGGATGTGGTCATACGACATGCAAGGATTGCGGGCTTAGTCTTGTATCGTGCCCTTTGTGTCGGGAACCCATATCAACACGCCTGAGACTATATACTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003824 GO:0004842 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006464 GO:0006807 GO:0006950 GO:0006952 GO:0007154 GO:0007165 GO:0008150 GO:0008152 GO:0009605 GO:0009607 GO:0009611 GO:0009617 GO:0009719 GO:0009725 GO:0009753 GO:0009755 GO:0009867 GO:0009987 GO:0010033 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0023052 GO:0032446 GO:0032870 GO:0036211 GO:0042221 GO:0042742 GO:0043170 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044424 GO:0044464 GO:0050789 GO:0050794 GO:0050896 GO:0051704 GO:0051707 GO:0051716 GO:0065007 GO:0070647 GO:0070887 GO:0071229 GO:0071310 GO:0071395 GO:0071495 GO:0071704 GO:0098542 GO:0140096 GO:1901564 GO:1901700 GO:1901701

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Copine zf-C3HC4_3

Protein Analysis

369

Amino Acids

40.66

Weight (kDa)

6.0

Isoelectric Point (pI)

37.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Copine	PF07002	61 - 275	1.8e-69	Copine
zf-C3HC4_3	PF13920	321 - 362	8.1e-09	Zinc finger, C3HC4 type (RING finger)

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: OG0005125)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G63970 AT5G63970
fragaria_vesca	FvH4_1g24670 FvH4_1g24670 FvH4_1g24670 FvH4_1g24670 FvH4_1g24670 FvH4_1g24670 FvH4_1g24670 FvH4_1g24670 FvH4_1g24670 FvH4_1g24670
malus_domestica	MD16G1282700.v1.1
prunus_persica	Prupe.4G273300_v2.0.a1 Prupe.4G273300_v2.0.a1 Prupe.4G273300_v2.0.a1 Prupe.4G273300_v2.0.a1 Prupe.4G273300_v2.0.a1 Prupe.4G273300_v2.0.a1
rosa_chinensis	RchiOBHm_Chr2g0122151
rosa_laevigata	RLG00000018654
rosa_multiflora	Rmu_sc0000805.1_g000043 Rmu_sc0004574.1_g000050
rosa_roxburghii	Rroxscaffold_2G00121990
rosa_rugosa	Rorug02G0236600
rosa_samantha	Rh2AG293400 Rh2BG303800 Rh2CG282100 Rh2DG317300
rosa_wichuraiana	Rw2G023520

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	126
AciI	CCGC	2 cut(s)	440, 1038
AclWI	GGATC	1 cut(s)	72
AcoI	YGGCCR	1 cut(s)	235
AcsI	RAATTY	3 cut(s)	109, 568, 777
AfaI	GTAC	1 cut(s)	847
AfeI	AGCGCT	1 cut(s)	674
AfiI	CCNNNNNNNGG	4 cut(s)	281, 804, 836, 913
AgeI	ACCGGT	1 cut(s)	964
AgsI	TTSAA	5 cut(s)	101, 400, 458, 788, 903
AjnI	CCWGG	1 cut(s)	532
AluBI	AGCT	5 cut(s)	92, 365, 584, 944, 953
AluI	AGCT	5 cut(s)	92, 365, 584, 944, 953
Alw26I	GTCTC	1 cut(s)	1087
AlwI	GGATC	1 cut(s)	72
Ama87I	CYCGRG	1 cut(s)	956
Aor51HI	AGCGCT	1 cut(s)	674
AoxI	GGCC	4 cut(s)	94, 235, 337, 851
ApeKI	GCWGC	4 cut(s)	581, 646, 749, 764
ApoI	RAATTY	3 cut(s)	109, 568, 777
AsiGI	ACCGGT	1 cut(s)	964
Asp700I	GAANNNNTTC	1 cut(s)	160
AspLEI	GCGC	1 cut(s)	675
AspS9I	GGNCC	4 cut(s)	337, 410, 629, 839
AsuHPI	GGTGA	3 cut(s)	697, 886, 928
AvaI	CYCGRG	1 cut(s)	956
AvaII	GGWCC	3 cut(s)	410, 629, 839
AxyI	CCTNAGG	1 cut(s)	333
BaeGI	GKGCMC	1 cut(s)	1061
BanII	GRGCYC	1 cut(s)	521
BbvI	GCAGC	4 cut(s)	593, 658, 751, 761
BccI	CCATC	2 cut(s)	494, 620
BceAI	ACGGC	2 cut(s)	165, 222
BciT130I	CCWGG	1 cut(s)	534
BclI	TGATCA	1 cut(s)	307
BcoDI	GTCTC	1 cut(s)	1087
BfaI	CTAG	2 cut(s)	513, 585
BfmI	CTRYAG	2 cut(s)	831, 948
BfoI	RGCGCY	1 cut(s)	676
BisI	GCNGC	5 cut(s)	441, 582, 647, 750, 765
BlsI	GCNGC	5 cut(s)	442, 583, 648, 751, 766
Bme1390I	CCNGG	1 cut(s)	534
Bme18I	GGWCC	3 cut(s)	410, 629, 839
BmeT110I	CYCGRG	1 cut(s)	956
BmgT120I	GGNCC	4 cut(s)	337, 410, 629, 839
BmiI	GGNNCC	3 cut(s)	518, 963, 1074
BmrFI	CCNGG	1 cut(s)	534
BmsI	GCATC	4 cut(s)	305, 427, 628, 743
BsaJI	CCNNGG	2 cut(s)	632, 957
BsaWI	WCCGGW	1 cut(s)	964
Bsc4I	CCNNNNNNNGG	4 cut(s)	281, 804, 836, 913
Bse118I	RCCGGY	1 cut(s)	964
Bse1I	ACTGG	1 cut(s)	691
Bse21I	CCTNAGG	1 cut(s)	333
Bse3DI	GCAATG	3 cut(s)	148, 472, 648
BseBI	CCWGG	1 cut(s)	534
BseDI	CCNNGG	2 cut(s)	632, 957
BseGI	GGATG	4 cut(s)	13, 631, 643, 1016
BseLI	CCNNNNNNNGG	4 cut(s)	281, 804, 836, 913
BseMI	GCAATG	3 cut(s)	148, 472, 648
BseMII	CTCAG	2 cut(s)	324, 1082
BseNI	ACTGG	1 cut(s)	691
BseRI	GAGGAG	1 cut(s)	519
BseSI	GKGCMC	1 cut(s)	1061
BseXI	GCAGC	4 cut(s)	593, 658, 751, 761
BshFI	GGCC	4 cut(s)	96, 237, 339, 853
BshTI	ACCGGT	1 cut(s)	964
BsiHKCI	CYCGRG	1 cut(s)	956
BsiSI	CCGG	1 cut(s)	965
BslFI	GGGAC	1 cut(s)	957
BslI	CCNNNNNNNGG	4 cut(s)	281, 804, 836, 913
BsmAI	GTCTC	1 cut(s)	1087
BsmFI	GGGAC	1 cut(s)	957
BsnI	GGCC	4 cut(s)	96, 237, 339, 853
BsoBI	CYCGRG	1 cut(s)	956
Bsp1286I	GDGCHC	2 cut(s)	521, 1061
Bsp143I	GATC	3 cut(s)	64, 222, 307
Bsp19I	CCATGG	1 cut(s)	632
BspACI	CCGC	2 cut(s)	440, 1038
BspANI	GGCC	4 cut(s)	96, 237, 339, 853
BspCNI	CTCAG	2 cut(s)	325, 1083
BspHI	TCATGA	1 cut(s)	883
BspLI	GGNNCC	3 cut(s)	518, 963, 1074
BspPI	GGATC	1 cut(s)	72
BsrDI	GCAATG	3 cut(s)	148, 472, 648
BsrFI	RCCGGY	1 cut(s)	964
BsrI	ACTGG	1 cut(s)	691
BssAI	RCCGGY	1 cut(s)	964
BssECI	CCNNGG	2 cut(s)	632, 957
BssMI	GATC	3 cut(s)	64, 222, 307
BssT1I	CCWWGG	1 cut(s)	632
Bst2UI	CCWGG	1 cut(s)	534
BstAPI	GCANNNNNTGC	3 cut(s)	755, 764, 1035
BstC8I	GCNNGC	3 cut(s)	94, 219, 1040
BstDEI	CTNAG	3 cut(s)	333, 1043, 1091
BstDSI	CCRYGG	1 cut(s)	632
BstF5I	GGATG	4 cut(s)	13, 631, 643, 1016
BstH2I	RGCGCY	1 cut(s)	676
BstHHI	GCGC	1 cut(s)	675
BstKTI	GATC	3 cut(s)	67, 225, 310
BstMAI	GTCTC	1 cut(s)	1087
BstMBI	GATC	3 cut(s)	64, 222, 307
BstMWI	GCNNNNNNNGC	4 cut(s)	755, 764, 950, 1035
BstNI	CCWGG	1 cut(s)	534
BstNSI	RCATGY	2 cut(s)	221, 1029
BstSCI	CCNGG	1 cut(s)	532
BstSFI	CTRYAG	2 cut(s)	831, 948
BstSLI	GKGCMC	1 cut(s)	1061
BstV1I	GCAGC	4 cut(s)	593, 658, 751, 761
Bsu36I	CCTNAGG	1 cut(s)	333
BsuRI	GGCC	4 cut(s)	96, 237, 339, 853
BtgI	CCRYGG	1 cut(s)	632
BtsCI	GGATG	4 cut(s)	13, 631, 643, 1016
Cac8I	GCNNGC	3 cut(s)	94, 219, 1040
CciI	TCATGA	1 cut(s)	883
CfoI	GCGC	1 cut(s)	675
Cfr10I	RCCGGY	1 cut(s)	964
Cfr13I	GGNCC	4 cut(s)	337, 410, 629, 839
Csp6I	GTAC	1 cut(s)	846
CspAI	ACCGGT	1 cut(s)	964
CviQI	GTAC	1 cut(s)	846
DdeI	CTNAG	3 cut(s)	333, 1043, 1091
DpnI	GATC	3 cut(s)	66, 224, 309
DpnII	GATC	3 cut(s)	64, 222, 307
EaeI	YGGCCR	1 cut(s)	235
Eco130I	CCWWGG	1 cut(s)	632
Eco24I	GRGCYC	1 cut(s)	521
Eco47I	GGWCC	3 cut(s)	410, 629, 839
Eco47III	AGCGCT	1 cut(s)	674
Eco81I	CCTNAGG	1 cut(s)	333
Eco88I	CYCGRG	1 cut(s)	956
EcoRII	CCWGG	1 cut(s)	532
EcoT14I	CCWWGG	1 cut(s)	632
EcoT22I	ATGCAT	1 cut(s)	736
EcoT38I	GRGCYC	1 cut(s)	521
ErhI	CCWWGG	1 cut(s)	632
FalI	AAGNNNNNCTT	2 cut(s)	81, 113
FaqI	GGGAC	1 cut(s)	957
FauI	CCCGC	1 cut(s)	1031
FbaI	TGATCA	1 cut(s)	307
FblI	GTMKAC	1 cut(s)	126
Fnu4HI	GCNGC	5 cut(s)	441, 582, 647, 750, 765
FokI	GGATG	3 cut(s)	638, 650, 1023
FriOI	GRGCYC	1 cut(s)	521
Fsp4HI	GCNGC	5 cut(s)	441, 582, 647, 750, 765
FspBI	CTAG	2 cut(s)	513, 585
GlaI	GCGC	1 cut(s)	674
GluI	GCNGC	5 cut(s)	441, 582, 647, 750, 765
HaeII	RGCGCY	1 cut(s)	676
HaeIII	GGCC	4 cut(s)	96, 237, 339, 853
HapII	CCGG	1 cut(s)	965
HhaI	GCGC	1 cut(s)	675
Hin6I	GCGC	1 cut(s)	673
HinP1I	GCGC	1 cut(s)	673
HincII	GTYRAC	2 cut(s)	127, 700
HindII	GTYRAC	2 cut(s)	127, 700
HinfI	GANTC	4 cut(s)	101, 285, 540, 880
HpaII	CCGG	1 cut(s)	965
HphI	GGTGA	3 cut(s)	697, 886, 928
Hpy166II	GTNNAC	4 cut(s)	127, 548, 700, 919
Hpy188I	TCNGA	4 cut(s)	414, 721, 927, 1010
Hpy188III	TCNNGA	5 cut(s)	332, 824, 884, 956, 1070
Hpy8I	GTNNAC	4 cut(s)	127, 548, 700, 919
HpyAV	CCTTC	1 cut(s)	736
HpyCH4IV	ACGT	1 cut(s)	480
HpyF10VI	GCNNNNNNNGC	4 cut(s)	755, 764, 950, 1035
HpyF3I	CTNAG	3 cut(s)	333, 1043, 1091
HpySE526I	ACGT	1 cut(s)	480
HspAI	GCGC	1 cut(s)	673
Ksp22I	TGATCA	1 cut(s)	307
Kzo9I	GATC	3 cut(s)	64, 222, 307
LmnI	GCTCC	3 cut(s)	516, 949, 958
Lsp1109I	GCAGC	4 cut(s)	593, 658, 751, 761
LweI	GCATC	4 cut(s)	305, 427, 628, 743
MaeI	CTAG	2 cut(s)	513, 585
MaeII	ACGT	1 cut(s)	480
MaeIII	GTNAC	1 cut(s)	508
MalI	GATC	3 cut(s)	66, 224, 309
MboI	GATC	3 cut(s)	64, 222, 307
MboII	GAAGA	3 cut(s)	168, 272, 549
MfeI	CAATTG	2 cut(s)	189, 444
MhlI	GDGCHC	2 cut(s)	521, 1061
MmeI	TCCRAC	2 cut(s)	437, 595
MnlI	CCTC	9 cut(s)	328, 352, 427, 540, 779, 852, 865, 873, 952
Mph1103I	ATGCAT	1 cut(s)	736
MroXI	GAANNNNTTC	1 cut(s)	160
MseI	TTAA	3 cut(s)	54, 113, 897
MslI	CAYNNNNRTG	1 cut(s)	865
MspI	CCGG	1 cut(s)	965
MspR9I	CCNGG	1 cut(s)	534
MunI	CAATTG	2 cut(s)	189, 444
MvaI	CCWGG	1 cut(s)	534
MwoI	GCNNNNNNNGC	4 cut(s)	755, 764, 950, 1035
NcoI	CCATGG	1 cut(s)	632
NdeII	GATC	3 cut(s)	64, 222, 307
NlaIV	GGNNCC	3 cut(s)	518, 963, 1074
NsiI	ATGCAT	1 cut(s)	736
NspI	RCATGY	2 cut(s)	221, 1029
PaeI	GCATGC	1 cut(s)	221
PagI	TCATGA	1 cut(s)	883
PdmI	GAANNNNTTC	1 cut(s)	160
PfeI	GAWTC	4 cut(s)	101, 285, 540, 880
PfoI	TCCNGGA	1 cut(s)	532
PinAI	ACCGGT	1 cut(s)	964
PkrI	GCNGC	5 cut(s)	442, 583, 648, 751, 766
Psp6I	CCWGG	1 cut(s)	532
PspGI	CCWGG	1 cut(s)	532
PspN4I	GGNNCC	3 cut(s)	518, 963, 1074
PspPI	GGNCC	4 cut(s)	337, 410, 629, 839
RsaI	GTAC	1 cut(s)	847
RsaNI	GTAC	1 cut(s)	846
RseI	CAYNNNNRTG	1 cut(s)	865
SalI	GTCGAC	1 cut(s)	125
SaqAI	TTAA	3 cut(s)	54, 113, 897
SatI	GCNGC	5 cut(s)	441, 582, 647, 750, 765
Sau3AI	GATC	3 cut(s)	64, 222, 307
Sau96I	GGNCC	4 cut(s)	337, 410, 629, 839
ScrFI	CCNGG	1 cut(s)	534
SduI	GDGCHC	2 cut(s)	521, 1061
SfaNI	GCATC	4 cut(s)	305, 427, 628, 743
SfcI	CTRYAG	2 cut(s)	831, 948
SinI	GGWCC	3 cut(s)	410, 629, 839
SmiMI	CAYNNNNRTG	1 cut(s)	865
SphI	GCATGC	1 cut(s)	221
SsiI	CCGC	2 cut(s)	440, 1038
SspI	AATATT	1 cut(s)	593
SspMI	CTAG	2 cut(s)	513, 585
StyD4I	CCNGG	1 cut(s)	532
StyI	CCWWGG	1 cut(s)	632
TaiI	ACGT	1 cut(s)	483
TaqI	TCGA	2 cut(s)	126, 357
TauI	GCSGC	1 cut(s)	443
TfiI	GAWTC	4 cut(s)	101, 285, 540, 880
Tru1I	TTAA	3 cut(s)	54, 113, 897
Tru9I	TTAA	3 cut(s)	54, 113, 897
TseI	GCWGC	4 cut(s)	581, 646, 749, 764
TspDTI	ATGAA	5 cut(s)	153, 159, 273, 800, 893
TspGWI	ACGGA	1 cut(s)	562
VpaK11BI	GGWCC	3 cut(s)	410, 629, 839
XapI	RAATTY	3 cut(s)	109, 568, 777
XceI	RCATGY	2 cut(s)	221, 1029
XmiI	GTMKAC	1 cut(s)	126
XmnI	GAANNNNTTC	1 cut(s)	160
XspI	CTAG	2 cut(s)	513, 585
Zsp2I	ATGCAT	1 cut(s)	736

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