MD02G1293300.v1.1

ribonuclease H protein At1g65750

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr02
OG0000842
Physical Location & Seq
Forward (+)
34882377 .. 34883638
1262 bp
Loading structure...
UTR
Exon/CDS
Intron
MD02G1293300.v1.1.491

Sequence Viewer

Length: 1242 bp
ATGTCATTGTTCAAAATTCCTGGCGGGGTAAGAAGACGTCTAGAAAAATTAATGAAAGGGTTTCTCTGGGAAGGCGTGGAGGAAGGTAAGAAATCCCATTTGGTCAAATGGGAGTTAGTTACTAAAAACAAGGAGGAAGGAGGTCTAGGGGTGGGGAATTTGAGGAATCAGAACGAAGCACTATTGGCTAAGTGGTTGTGGAGATTCCCAAGGGAGTCTCATTCCCTATGGCACAAGGTGATAAGAAGCAAGTATGGGCTACAAGTGAATGGATGGAATGCACTTCCTCCAAGGAGGGTTTCAAGTCGTAGCCCATGGAAAGACATTTCGAGTGGTGCTCATCAGTTTCTTGGATGCTGCAAGTTTGAGGTGGGCAATGGAGAGAGGGTGAGGTTTTGGGAGGATGGGTGGTTAGCAGGAGGACCGTTGAAGGAGCAATTCCCCAGATTATTCTTATTATCGAGGAAGCATAATCATAACATTTCTAGCTTTGTGGAAGCTTCGTCAAGTTCCTTGAGTTGGAACTTTGATTTTAGGAGAAATTTGAATGAGATGGAGATAGAAGAGGCAGCCAGCTTATTACAGAAAGTGGAAGTGGTTCGCTTGTCTCCATCAAAAATGGATAACAGAAGGTGGAACCTAGAAGCTTCAGGTTTGTTCACATGCAAATCCTATCGTTCATTACTGAGCAACAATGGGATTGTGCACTATTATCCACCCTACTCTCAGATTTGGAAATCAAAAGCTCCTCCGAAGGTTAAAATACTTGTATGGCTTGTGGCCACTGGGAGCCTCAACACTTGCGACAAAATTCAAAGGAGAAACCCTCTGATGTGTTTATCCCCACATTGGTGTAGTTTATGTAAAGCTAAGGAGGAGAGTGTAAATCACATCTTTCTTCATTGCTCCTACTCGATCCAACTATGGTGGAAACTATTTCAGGAGGTTAAAGTAAGTTGGGTCATTCCTAAAAGGTGTTTTGAGCTACTAAGCACCAATTTTAAGGCACTTGGAAAATGGAAAAAATCCAAAGCTTTGTGGGGTTGCCTGGTATCGGCAATTTTTTGGAATATATGGCTGGAACGCAACAGAAGGATTTTTGAAGACTATACTGGAGTGGGGGCAAAAGTACTTTGGGGGAGAGTAAAATATTGGGCATCTTTTTGGGCTTCGGTTACTAAAGAGTTTAATAATTGCTCTCTATCTCAAATACTGTGGGATTTGTTAGCAGCAGTTAAGTGA
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
DUF4283 RVT_1 RVT_3 zf-RVT

Protein Analysis

414

Amino Acids

48.13

Weight (kDa)

9.87

Isoelectric Point (pI)

53.47

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-RVT PF13966 221 - 309 4e-17 zinc-binding in reverse transcriptase
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
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: OG0000842)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g15420 FvH4_2g00771 FvH4_3g29363
malus_domestica MD02G1293300.v1.1 MD06G1023000.v1.1 MD09G1232900.v1.1
prunus_persica Prupe.1G181500_v2.0.a1 Prupe.1G572100_v2.0.a1 Prupe.2G095500_v2.0.a1 Prupe.3G150400_v2.0.a1 Prupe.3G156200_v2.0.a1 Prupe.4G274400_v2.0.a1 Prupe.5G070700_v2.0.a1 Prupe.7G038000_v2.0.a1 Prupe.7G164000_v2.0.a1 Prupe.8G056500_v2.0.a1
pyrus_communis pycom04g02040 pycom05g04600 pycom07g05610 pycom08g16130 pycom11g16470 pycom12g07830 pycom15g38190 pycom215g00040
rosa_chinensis RchiOBHm_Chr1g0348881 RchiOBHm_Chr5g0032951 RchiOBHm_Chr6g0273271 RchiOBHm_Chr7g0218191 RchiOBHm_Chr7g0223721
rosa_multiflora Rmu_co8286615.1_g000001 Rmu_sc0001354.1_g000002 Rmu_sc0001925.1_g000003 Rmu_sc0001925.1_g000005 Rmu_sc0002221.1_g000004 Rmu_sc0002316.1_g000096 Rmu_sc0003291.1_g000005 Rmu_sc0003413.1_g000005 Rmu_sc0003542.1_g000011 Rmu_sc0004035.1_g000003 Rmu_sc0004035.1_g000004 Rmu_sc0004145.1_g000016 Rmu_sc0004660.1_g000004 Rmu_sc0005999.1_g000006 Rmu_sc0006123.1_g000002 Rmu_sc0006586.1_g000006 Rmu_sc0006889.1_g000029 Rmu_sc0008035.1_g000014 Rmu_sc0011962.1_g000002 Rmu_sc0029950.1_g000001 Rmu_sc0042409.1_g000001 Rmu_ssc0000238.1_g000013
rosa_roxburghii Rroxscaffold_2G00137410 Rroxscaffold_4G00312010 Rroxscaffold_4G00320800 Rroxscaffold_5G00341720 Rroxscaffold_5G00353530 Rroxscaffold_5G00360290 Rroxscaffold_7G00214170 Rroxscaffold_7G00215920
rosa_rugosa Rorug02G0157000
rosa_samantha Rh4BG196500 Rh6CG346400 Rh7BG241100 Rh7DG316300
rosa_wichuraiana Rw1G003610 Rw7G012170 Rw7G030150

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 40
AciI CCGC 1 cut(s) 24
AclWI GGATC 1 cut(s) 910
AcoI YGGCCR 1 cut(s) 780
AcsI RAATTY 4 cut(s) 15, 157, 541, 810
AcuI CTGAAG 1 cut(s) 633
AcyI GRCGYC 1 cut(s) 37
AdeI CACNNNGTG 1 cut(s) 238
AfaI GTAC 1 cut(s) 1131
AfiI CCNNNNNNNGG 3 cut(s) 519, 849, 1054
AgsI TTSAA 6 cut(s) 13, 303, 430, 547, 815, 1103
AjnI CCWGG 2 cut(s) 19, 1047
AjuI GAANNNNNNNTTGG 4 cut(s) 83, 115, 283, 315
AleI CACNNNNGTG 1 cut(s) 850
AluBI AGCT 8 cut(s) 489, 500, 576, 647, 746, 869, 985, 1034
AluI AGCT 8 cut(s) 489, 500, 576, 647, 746, 869, 985, 1034
Alw21I GWGCWC 2 cut(s) 340, 708
Alw26I GTCTC 2 cut(s) 222, 612
Alw44I GTGCAC 1 cut(s) 704
AlwI GGATC 1 cut(s) 910
AoxI GGCC 1 cut(s) 780
ApaLI GTGCAC 1 cut(s) 704
ApeKI GCWGC 3 cut(s) 357, 569, 1229
ApoI RAATTY 4 cut(s) 15, 157, 541, 810
AseI ATTAAT 1 cut(s) 50
Asp700I GAANNNNTTC 1 cut(s) 597
AspS9I GGNCC 1 cut(s) 422
AsuHPI GGTGA 2 cut(s) 250, 400
AvaII GGWCC 1 cut(s) 422
BaeGI GKGCMC 1 cut(s) 708
BalI TGGCCA 1 cut(s) 782
BbsI GAAGAC 2 cut(s) 40, 1110
Bbv12I GWGCWC 2 cut(s) 340, 708
BbvI GCAGC 2 cut(s) 344, 581
BccI CCATC 4 cut(s) 267, 398, 547, 619
BciT130I CCWGG 2 cut(s) 21, 1049
BcoDI GTCTC 2 cut(s) 222, 612
BfaI CTAG 4 cut(s) 41, 146, 486, 641
BisI GCNGC 3 cut(s) 358, 570, 1230
BlsI GCNGC 3 cut(s) 359, 571, 1231
BmcAI AGTACT 1 cut(s) 1131
Bme1390I CCNGG 2 cut(s) 21, 1049
Bme18I GGWCC 1 cut(s) 422
BmgT120I GGNCC 1 cut(s) 422
BmiI GGNNCC 2 cut(s) 638, 791
BmrFI CCNGG 2 cut(s) 21, 1049
BmrI ACTGGG 1 cut(s) 795
BmsI GCATC 2 cut(s) 344, 1166
BmuI ACTGGG 1 cut(s) 795
BpiI GAAGAC 2 cut(s) 40, 1110
BplI GAGNNNNNCTC 4 cut(s) 322, 354, 811, 843
BpmI CTGGAG 1 cut(s) 1134
Bpu10I CCTNAGC 1 cut(s) 870
BpuEI CTTGAG 1 cut(s) 535
BsaHI GRCGYC 1 cut(s) 37
BsaJI CCNNGG 3 cut(s) 209, 290, 314
BsaXI ACNNNNNCTCC 4 cut(s) 372, 392, 402, 422
Bsc4I CCNNNNNNNGG 3 cut(s) 519, 849, 1054
Bse1I ACTGG 2 cut(s) 790, 1117
Bse3DI GCAATG 2 cut(s) 382, 901
BseBI CCWGG 2 cut(s) 21, 1049
BseDI CCNNGG 3 cut(s) 209, 290, 314
BseGI GGATG 3 cut(s) 278, 359, 409
BseLI CCNNNNNNNGG 3 cut(s) 519, 849, 1054
BseMI GCAATG 2 cut(s) 382, 901
BseMII CTCAG 2 cut(s) 677, 740
BseNI ACTGG 2 cut(s) 790, 1117
BseRI GAGGAG 2 cut(s) 738, 890
BseSI GKGCMC 1 cut(s) 708
BseXI GCAGC 2 cut(s) 344, 581
BshFI GGCC 1 cut(s) 782
BsiHKAI GWGCWC 2 cut(s) 340, 708
BslI CCNNNNNNNGG 3 cut(s) 519, 849, 1054
BsmAI GTCTC 2 cut(s) 222, 612
BsmI GAATGC 1 cut(s) 283
BsnI GGCC 1 cut(s) 782
Bsp1286I GDGCHC 2 cut(s) 340, 708
Bsp143I GATC 1 cut(s) 915
Bsp19I CCATGG 1 cut(s) 314
BspACI CCGC 1 cut(s) 24
BspANI GGCC 1 cut(s) 782
BspCNI CTCAG 2 cut(s) 678, 739
BspLI GGNNCC 2 cut(s) 638, 791
BspPI GGATC 1 cut(s) 910
BsrDI GCAATG 2 cut(s) 382, 901
BsrI ACTGG 2 cut(s) 790, 1117
BssECI CCNNGG 3 cut(s) 209, 290, 314
BssMI GATC 1 cut(s) 915
BssNI GRCGYC 1 cut(s) 37
BssT1I CCWWGG 3 cut(s) 209, 290, 314
Bst2UI CCWGG 2 cut(s) 21, 1049
Bst4CI ACNGT 2 cut(s) 426, 1215
Bst6I CTCTTC 1 cut(s) 558
BstACI GRCGYC 1 cut(s) 37
BstC8I GCNNGC 1 cut(s) 574
BstDEI CTNAG 5 cut(s) 189, 686, 726, 870, 989
BstDSI CCRYGG 1 cut(s) 314
BstF5I GGATG 3 cut(s) 278, 359, 409
BstKTI GATC 1 cut(s) 918
BstMAI GTCTC 2 cut(s) 222, 612
BstMBI GATC 1 cut(s) 915
BstMWI GCNNNNNNNGC 1 cut(s) 185
BstNI CCWGG 2 cut(s) 21, 1049
BstNSI RCATGY 1 cut(s) 666
BstSCI CCNGG 2 cut(s) 19, 1047
BstSLI GKGCMC 1 cut(s) 708
BstV1I GCAGC 2 cut(s) 344, 581
BstV2I GAAGAC 2 cut(s) 40, 1110
BsuRI GGCC 1 cut(s) 782
BtgI CCRYGG 1 cut(s) 314
BtsCI GGATG 3 cut(s) 278, 359, 409
BtsIMutI CAGTG 1 cut(s) 783
Cac8I GCNNGC 1 cut(s) 574
Cfr13I GGNCC 1 cut(s) 422
Csp6I GTAC 1 cut(s) 1130
CspCI CAANNNNNGTGG 4 cut(s) 908, 943, 1196, 1231
CviAII CATG 2 cut(s) 315, 663
CviQI GTAC 1 cut(s) 1130
DdeI CTNAG 5 cut(s) 189, 686, 726, 870, 989
DpnI GATC 1 cut(s) 917
DpnII GATC 1 cut(s) 915
DraIII CACNNNGTG 1 cut(s) 238
EaeI YGGCCR 1 cut(s) 780
Eam1104I CTCTTC 1 cut(s) 558
EarI CTCTTC 1 cut(s) 558
Eco130I CCWWGG 3 cut(s) 209, 290, 314
Eco47I GGWCC 1 cut(s) 422
Eco57I CTGAAG 1 cut(s) 633
EcoRII CCWGG 2 cut(s) 19, 1047
EcoT14I CCWWGG 3 cut(s) 209, 290, 314
ErhI CCWWGG 3 cut(s) 209, 290, 314
FaeI CATG 2 cut(s) 318, 666
FatI CATG 2 cut(s) 314, 662
FauI CCCGC 1 cut(s) 17
Fnu4HI GCNGC 3 cut(s) 358, 570, 1230
FokI GGATG 3 cut(s) 285, 366, 416
Fsp4HI GCNGC 3 cut(s) 358, 570, 1230
FspBI CTAG 4 cut(s) 41, 146, 486, 641
GluI GCNGC 3 cut(s) 358, 570, 1230
GsuI CTGGAG 1 cut(s) 1134
HaeIII GGCC 1 cut(s) 782
Hin1I GRCGYC 1 cut(s) 37
Hin1II CATG 2 cut(s) 318, 666
HindIII AAGCTT 3 cut(s) 498, 645, 1032
HinfI GANTC 3 cut(s) 166, 204, 215
HphI GGTGA 2 cut(s) 250, 400
Hpy166II GTNNAC 2 cut(s) 660, 706
Hpy188I TCNGA 4 cut(s) 171, 729, 753, 831
Hpy188III TCNNGA 2 cut(s) 41, 941
Hpy8I GTNNAC 2 cut(s) 660, 706
HpyAV CCTTC 7 cut(s) 65, 77, 131, 424, 624, 748, 1086
HpyCH4III ACNGT 2 cut(s) 426, 1215
HpyCH4IV ACGT 1 cut(s) 37
HpyCH4V TGCA 4 cut(s) 281, 360, 666, 706
HpyF10VI GCNNNNNNNGC 1 cut(s) 185
HpyF3I CTNAG 5 cut(s) 189, 686, 726, 870, 989
HpySE526I ACGT 1 cut(s) 37
Hsp92I GRCGYC 1 cut(s) 37
Hsp92II CATG 2 cut(s) 318, 666
Kzo9I GATC 1 cut(s) 915
LmnI GCTCC 4 cut(s) 433, 751, 789, 911
Lsp1109I GCAGC 2 cut(s) 344, 581
LweI GCATC 2 cut(s) 344, 1166
MaeI CTAG 4 cut(s) 41, 146, 486, 641
MaeII ACGT 1 cut(s) 37
MaeIII GTNAC 2 cut(s) 118, 1174
MalI GATC 1 cut(s) 917
MboI GATC 1 cut(s) 915
MboII GAAGA 4 cut(s) 45, 575, 890, 1115
MhlI GDGCHC 2 cut(s) 340, 708
MlsI TGGCCA 1 cut(s) 782
MluCI AATT 9 cut(s) 15, 47, 157, 437, 541, 810, 997, 1059, 1192
MluNI TGGCCA 1 cut(s) 782
MlyI GAGTC 1 cut(s) 224
MmeI TCCRAC 2 cut(s) 500, 943
Mox20I TGGCCA 1 cut(s) 782
MroXI GAANNNNTTC 1 cut(s) 597
MscI TGGCCA 1 cut(s) 782
MseI TTAA 6 cut(s) 50, 759, 948, 1002, 1188, 1236
MslI CAYNNNNRTG 1 cut(s) 850
Msp20I TGGCCA 1 cut(s) 782
MspR9I CCNGG 2 cut(s) 21, 1049
Mva1269I GAATGC 1 cut(s) 283
MvaI CCWGG 2 cut(s) 21, 1049
MwoI GCNNNNNNNGC 1 cut(s) 185
NcoI CCATGG 1 cut(s) 314
NdeII GATC 1 cut(s) 915
NlaIII CATG 2 cut(s) 318, 666
NlaIV GGNNCC 2 cut(s) 638, 791
NspI RCATGY 1 cut(s) 666
OliI CACNNNNGTG 1 cut(s) 850
PctI GAATGC 1 cut(s) 283
PdmI GAANNNNTTC 1 cut(s) 597
PfeI GAWTC 2 cut(s) 166, 204
PkrI GCNGC 3 cut(s) 359, 571, 1231
PleI GAGTC 1 cut(s) 223
PpsI GAGTC 1 cut(s) 223
PshBI ATTAAT 1 cut(s) 50
Psp6I CCWGG 2 cut(s) 19, 1047
PspGI CCWGG 2 cut(s) 19, 1047
PspN4I GGNNCC 2 cut(s) 638, 791
PspPI GGNCC 1 cut(s) 422
RsaI GTAC 1 cut(s) 1131
RsaNI GTAC 1 cut(s) 1130
RseI CAYNNNNRTG 1 cut(s) 850
SaqAI TTAA 6 cut(s) 50, 759, 948, 1002, 1188, 1236
SatI GCNGC 3 cut(s) 358, 570, 1230
Sau3AI GATC 1 cut(s) 915
Sau96I GGNCC 1 cut(s) 422
ScaI AGTACT 1 cut(s) 1131
SchI GAGTC 1 cut(s) 224
ScrFI CCNGG 2 cut(s) 21, 1049
SduI GDGCHC 2 cut(s) 340, 708
SfaNI GCATC 2 cut(s) 344, 1166
SinI GGWCC 1 cut(s) 422
SmiMI CAYNNNNRTG 1 cut(s) 850
SmlI CTYRAG 1 cut(s) 514
SmoI CTYRAG 1 cut(s) 514
Sse9I AATT 9 cut(s) 15, 47, 157, 437, 541, 810, 997, 1059, 1192
SsiI CCGC 1 cut(s) 24
SspI AATATT 1 cut(s) 1151
SspMI CTAG 4 cut(s) 41, 146, 486, 641
StyD4I CCNGG 2 cut(s) 19, 1047
StyI CCWWGG 3 cut(s) 209, 290, 314
TaaI ACNGT 2 cut(s) 426, 1215
TaiI ACGT 1 cut(s) 40
TaqI TCGA 3 cut(s) 329, 461, 914
TasI AATT 9 cut(s) 15, 47, 157, 437, 541, 810, 997, 1059, 1192
TatI WGTACW 1 cut(s) 1129
TfiI GAWTC 2 cut(s) 166, 204
Tru1I TTAA 6 cut(s) 50, 759, 948, 1002, 1188, 1236
Tru9I TTAA 6 cut(s) 50, 759, 948, 1002, 1188, 1236
TscAI CASTG 1 cut(s) 790
TseI GCWGC 3 cut(s) 357, 569, 1229
TspDTI ATGAA 3 cut(s) 68, 669, 890
TspRI CASTG 1 cut(s) 790
VneI GTGCAC 1 cut(s) 704
VpaK11BI GGWCC 1 cut(s) 422
VspI ATTAAT 1 cut(s) 50
XapI RAATTY 4 cut(s) 15, 157, 541, 810
XbaI TCTAGA 1 cut(s) 40
XceI RCATGY 1 cut(s) 666
XmnI GAANNNNTTC 1 cut(s) 597
XspI CTAG 4 cut(s) 41, 146, 486, 641
ZraI GACGTC 1 cut(s) 38
ZrmI AGTACT 1 cut(s) 1131
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.