AT5G42965

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0000194
Physical Location & Seq
Forward (+)
17236736 .. 17237139
404 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G42965.1

Sequence Viewer

Length: 390 bp
ATGTTGTGGCTGGGACTTCGTGCAATCCCGAGAGTTCAGACAGTGTTGGAAGTGGAACTTGAAGCTATGAGATGGGCAGCTCTTTCAATGTCAAGATTTAACTATAAGAAAGTCATCTTTGAATCAGATTCCCAACATCTAGTGTCTCTGTTAGGGGATGATACTGATTATCCAAATTTGGCCCCAAGAATTCAGGACATTAGACATATATTCCAACAATTTGAGGAGGTGAAGGTGATGCATATAAAGCGTGAAGGAAACAGTGTGGCAGATAGAATTGCTAGGGAATCTCTTTCTTTATTGAATTATGATCCTAAAATGTATTCTAAAGGTGCCGGCTTGGATAAAAGATTGTGTGTATTCAGACTCTGTGTAATCACCGTTTGGTAA
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_3 zf-RVT

Protein Analysis

129

Amino Acids

15.04

Weight (kDa)

8.62

Isoelectric Point (pI)

49.35

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 8 - 96 1.4e-16 Reverse transcriptase-like
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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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: OG0000194)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G34320 AT4G29090 AT5G42965
fragaria_vesca FvH4_1g19471 FvH4_1g29471 FvH4_1g29601 FvH4_2g04611 FvH4_2g05763 FvH4_2g11451 FvH4_2g11841 FvH4_3g10391 FvH4_3g21491 FvH4_3g21492 FvH4_3g32111 FvH4_3g35051 FvH4_4g06793 FvH4_5g08844 FvH4_5g15942 FvH4_5g18751 FvH4_5g27367 FvH4_6g11612 FvH4_6g20242 FvH4_6g27671 FvH4_6g31921 FvH4_7g32463
malus_domestica MD06G1107000.v1.1 MD07G1135800.v1.1 MD08G1205700.v1.1
prunus_persica Prupe.1G202000_v2.0.a1 Prupe.2G049100_v2.0.a1 Prupe.2G060500_v2.0.a1 Prupe.3G120300_v2.0.a1 Prupe.3G135000_v2.0.a1 Prupe.6G087800_v2.0.a1 Prupe.6G158500_v2.0.a1 Prupe.6G353900_v2.0.a1 Prupe.7G008600_v2.0.a1 Prupe.8G090500_v2.0.a1
pyrus_communis pycom01g21690 pycom02g19910 pycom04g18080 pycom07g08600 pycom07g18710 pycom07g26560 pycom08g03130 pycom08g13950 pycom09g06380 pycom10g13390 pycom10g22280 pycom11g04440 pycom11g10940 pycom12g04710 pycom13g08790 pycom15g31740 pycom17g14740 pycom17g24980
rosa_chinensis RchiOBHm_Chr1g0327801 RchiOBHm_Chr1g0347181 RchiOBHm_Chr1g0348821 RchiOBHm_Chr2g0157831 RchiOBHm_Chr5g0040851 RchiOBHm_Chr6g0249781 RchiOBHm_Chr7g0208461 RchiOBHm_Chr7g0210911 RchiOBHm_Chr7g0219141
rosa_laevigata RLG00000034326
rosa_multiflora Rmu_co8140276.1_g000001 Rmu_co8282095.1_g000001 Rmu_co8303311.1_g000001 Rmu_co8314215.1_g000001 Rmu_co8345435.1_g000001 Rmu_co8461745.1_g000001 Rmu_sc0000315.1_g000040 Rmu_sc0000487.1_g000014 Rmu_sc0000690.1_g000002 Rmu_sc0000808.1_g000001 Rmu_sc0000938.1_g000009 Rmu_sc0001260.1_g000002 Rmu_sc0001534.1_g000008 Rmu_sc0001669.1_g000003 Rmu_sc0001685.1_g000050 Rmu_sc0001838.1_g000007 Rmu_sc0002193.1_g000025 Rmu_sc0002308.1_g000058 Rmu_sc0002322.1_g000018 Rmu_sc0002529.1_g000008 Rmu_sc0002531.1_g000043 Rmu_sc0002754.1_g000022 Rmu_sc0002902.1_g000055 Rmu_sc0003627.1_g000005 Rmu_sc0003743.1_g000003 Rmu_sc0003765.1_g000016 Rmu_sc0003941.1_g000020 Rmu_sc0004038.1_g000011 Rmu_sc0004329.1_g000010 Rmu_sc0004476.1_g000002 Rmu_sc0004904.1_g000022 Rmu_sc0004988.1_g000017 Rmu_sc0005217.1_g000006 Rmu_sc0005257.1_g000010 Rmu_sc0005285.1_g000008 Rmu_sc0005687.1_g000001 Rmu_sc0006380.1_g000020 Rmu_sc0006922.1_g000004 Rmu_sc0007398.1_g000007 Rmu_sc0008279.1_g000019 Rmu_sc0009139.1_g000004 Rmu_sc0009158.1_g000001 Rmu_sc0010099.1_g000002 Rmu_sc0019043.1_g000001 Rmu_sc0022037.1_g000001 Rmu_sc0023291.1_g000001 Rmu_sc0031928.1_g000001 Rmu_sc0034436.1_g000002 Rmu_ssc0000126.1_g000001 Rmu_ssc0000151.1_g000016 Rmu_ssc0000152.1_g000009 Rmu_ssc0000395.1_g000031
rosa_roxburghii Rroxscaffold_1G00056570 Rroxscaffold_1G00058460 Rroxscaffold_2G00106120 Rroxscaffold_2G00106260 Rroxscaffold_6G00399080
rosa_rugosa Rorug02G0173300 Rorug02G0225600 Rorug03G0083300 Rorug03G0104900 Rorug04G0256500 Rorug05G0342600 Rorug06G0006200 Rorug06G0095200 Rorug06G0095600 Rorug06G0111500 Rorug07G0001200 Rorug07G0183100 Rorug07G0183100 Rorug07G0209000
rosa_samantha Rh2DG065400 Rh3DG315900 Rh4AG106100 Rh4BG362100 Rh4CG030200 Rh4DG239000 Rh4DG294000 Rh6DG304800 Rh7DG149500
rosa_wichuraiana Rw1G018070 Rw1G021220 Rw1G021820 Rw1G026430 Rw2G050800 Rw3G023330 Rw6G010050 Rw6G010440 Rw7G031930 Rw7G033860

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 332
AclWI GGATC 1 cut(s) 305
AcsI RAATTY 2 cut(s) 175, 189
AgsI TTSAA 4 cut(s) 62, 87, 122, 304
AluBI AGCT 2 cut(s) 65, 80
AluI AGCT 2 cut(s) 65, 80
Alw26I GTCTC 1 cut(s) 150
AlwI GGATC 1 cut(s) 305
AlwNI CAGNNNCTG 1 cut(s) 369
Ama87I CYCGRG 1 cut(s) 28
AoxI GGCC 1 cut(s) 180
ApeKI GCWGC 1 cut(s) 77
ApoI RAATTY 2 cut(s) 175, 189
AspS9I GGNCC 1 cut(s) 181
AsuHPI GGTGA 3 cut(s) 241, 247, 370
AvaI CYCGRG 1 cut(s) 28
BanI GGYRCC 1 cut(s) 332
BbvI GCAGC 1 cut(s) 89
BccI CCATC 1 cut(s) 66
BcoDI GTCTC 1 cut(s) 150
BfaI CTAG 2 cut(s) 140, 282
BisI GCNGC 1 cut(s) 78
BlsI GCNGC 1 cut(s) 79
BmeT110I CYCGRG 1 cut(s) 28
BmgT120I GGNCC 1 cut(s) 181
BmiI GGNNCC 2 cut(s) 183, 334
BmsI GCATC 1 cut(s) 228
Bse118I RCCGGY 1 cut(s) 335
BseGI GGATG 1 cut(s) 163
BseRI GAGGAG 1 cut(s) 239
BseXI GCAGC 1 cut(s) 89
BseYI CCCAGC 1 cut(s) 10
BshFI GGCC 1 cut(s) 182
BshNI GGYRCC 1 cut(s) 332
BsiHKCI CYCGRG 1 cut(s) 28
BsiSI CCGG 1 cut(s) 336
BslFI GGGAC 1 cut(s) 27
BsmAI GTCTC 1 cut(s) 150
BsmFI GGGAC 1 cut(s) 27
BsnI GGCC 1 cut(s) 182
BsoBI CYCGRG 1 cut(s) 28
Bsp143I GATC 1 cut(s) 310
BspANI GGCC 1 cut(s) 182
BspLI GGNNCC 2 cut(s) 183, 334
BspPI GGATC 1 cut(s) 305
BspT107I GGYRCC 1 cut(s) 332
BsrFI RCCGGY 1 cut(s) 335
BssAI RCCGGY 1 cut(s) 335
BssMI GATC 1 cut(s) 310
Bst4CI ACNGT 3 cut(s) 43, 263, 382
BstC8I GCNNGC 1 cut(s) 337
BstF5I GGATG 1 cut(s) 163
BstKTI GATC 1 cut(s) 313
BstMAI GTCTC 1 cut(s) 150
BstMBI GATC 1 cut(s) 310
BstMWI GCNNNNNNNGC 1 cut(s) 247
BstV1I GCAGC 1 cut(s) 89
BsuRI GGCC 1 cut(s) 182
BtsCI GGATG 1 cut(s) 163
BtsIMutI CAGTG 2 cut(s) 48, 268
Cac8I GCNNGC 1 cut(s) 337
CaiI CAGNNNCTG 1 cut(s) 369
Cfr10I RCCGGY 1 cut(s) 335
Cfr13I GGNCC 1 cut(s) 181
CviJI RGCY 5 cut(s) 10, 65, 80, 182, 339
CviKI_1 RGCY 5 cut(s) 10, 65, 80, 182, 339
DpnI GATC 1 cut(s) 312
DpnII GATC 1 cut(s) 310
Eco88I CYCGRG 1 cut(s) 28
EcoRI GAATTC 1 cut(s) 189
EcoT22I ATGCAT 1 cut(s) 243
FaiI YATR 7 cut(s) 68, 105, 207, 209, 243, 245, 309
FalI AAGNNNNNCTT 2 cut(s) 42, 74
FaqI GGGAC 1 cut(s) 27
Fnu4HI GCNGC 1 cut(s) 78
FokI GGATG 1 cut(s) 170
Fsp4HI GCNGC 1 cut(s) 78
FspBI CTAG 2 cut(s) 140, 282
GluI GCNGC 1 cut(s) 78
GsaI CCCAGC 1 cut(s) 14
HaeIII GGCC 1 cut(s) 182
HapII CCGG 1 cut(s) 336
HinfI GANTC 4 cut(s) 122, 128, 287, 366
HpaII CCGG 1 cut(s) 336
HphI GGTGA 3 cut(s) 241, 247, 370
Hpy188I TCNGA 3 cut(s) 39, 127, 365
Hpy188III TCNNGA 3 cut(s) 28, 93, 194
HpyAV CCTTC 2 cut(s) 226, 248
HpyCH4III ACNGT 3 cut(s) 43, 263, 382
HpyCH4V TGCA 2 cut(s) 23, 241
HpyF10VI GCNNNNNNNGC 1 cut(s) 247
KroI GCCGGC 1 cut(s) 335
KroNI GCCGGC 1 cut(s) 337
Kzo9I GATC 1 cut(s) 310
LpnPI CCDG 2 cut(s) 179, 349
Lsp1109I GCAGC 1 cut(s) 89
LweI GCATC 1 cut(s) 228
MaeI CTAG 2 cut(s) 140, 282
MalI GATC 1 cut(s) 312
MboI GATC 1 cut(s) 310
MluCI AATT 5 cut(s) 175, 189, 218, 276, 304
MlyI GAGTC 1 cut(s) 360
MmeI TCCRAC 2 cut(s) 27, 238
MnlI CCTC 2 cut(s) 217, 220
Mph1103I ATGCAT 1 cut(s) 243
MroNI GCCGGC 1 cut(s) 335
MseI TTAA 1 cut(s) 99
MspI CCGG 1 cut(s) 336
MwoI GCNNNNNNNGC 1 cut(s) 247
NaeI GCCGGC 1 cut(s) 337
NdeII GATC 1 cut(s) 310
NgoMIV GCCGGC 1 cut(s) 335
NlaIV GGNNCC 2 cut(s) 183, 334
NsiI ATGCAT 1 cut(s) 243
PdiI GCCGGC 1 cut(s) 337
PfeI GAWTC 3 cut(s) 122, 128, 287
PkrI GCNGC 1 cut(s) 79
PleI GAGTC 1 cut(s) 360
PpsI GAGTC 1 cut(s) 360
PspFI CCCAGC 1 cut(s) 10
PspN4I GGNNCC 2 cut(s) 183, 334
PspPI GGNCC 1 cut(s) 181
PstNI CAGNNNCTG 1 cut(s) 369
SaqAI TTAA 1 cut(s) 99
SatI GCNGC 1 cut(s) 78
Sau3AI GATC 1 cut(s) 310
Sau96I GGNCC 1 cut(s) 181
SchI GAGTC 1 cut(s) 360
SetI ASST 5 cut(s) 67, 82, 231, 237, 334
SfaNI GCATC 1 cut(s) 228
Sse9I AATT 5 cut(s) 175, 189, 218, 276, 304
SspMI CTAG 2 cut(s) 140, 282
TaaI ACNGT 3 cut(s) 43, 263, 382
TasI AATT 5 cut(s) 175, 189, 218, 276, 304
TfiI GAWTC 3 cut(s) 122, 128, 287
Tru1I TTAA 1 cut(s) 99
Tru9I TTAA 1 cut(s) 99
TscAI CASTG 2 cut(s) 48, 268
TseI GCWGC 1 cut(s) 77
TspRI CASTG 2 cut(s) 48, 268
XapI RAATTY 2 cut(s) 175, 189
XspI CTAG 2 cut(s) 140, 282
Zsp2I ATGCAT 1 cut(s) 243
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.