AT2G04420

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
2
OG0000204
Physical Location & Seq
Forward (+)
1535489 .. 1536250
762 bp
Loading structure...
UTR
Exon/CDS
Intron
AT2G04420.1

Sequence Viewer

Length: 666 bp
ATGTGGAGACTTTGGAGGAGTAGAAACCAGCTTGTTTTTCAGCACCAGAATTTATCTTGGCAAAGTACACTAAAGCGAGCAAAGGATGACGTACAAGAATGGGAGAATGCGCAAGAATATATCCAAAGTCTGAATCATTACACAGTAAGAGAAGGCTGCAACAATCGGGAATCGACACATCAGAAATGGGAACAACCACCAATGGGATGGATTAAATGCAACTATGATGGCTCTTTCAATTACCGCACACAACAAACAAACTCAGGATGGCTAATCAGAGACGACAAAGGATTCTATAAAGGAGCAGCACAAGCAGTTGGAGGAACAATGAATAATGCTTTGGAAAGTGAACTCCAAGCTTTGGTCATGGCCATGCAGCATACTTGGAGTCAAGGGTACCGTAAAGTCATCTTTGAAGGTGATAGCAAACAGGTGGAAGAACTACTGAACAGAAAACAAATGCATTTTGGAGCTTTTAATTGGATACGTGAAGCTTGGTCATGGAGCAAACGTTTTGAAGAAGTTATTTTCAGTTGGACGCCGAGAACGAACAACCAACCGGCTGATATGCTTGCAAAATCTCATCTGCCACAAGACACTTCCTTTATTTATCATTACTTTGTACCAAATTTTATCACAAACGCCCTACACTGTAATCACTATTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko04144 map04144
Pfam Domains
Protein Families
Exo_endo_phos_2 RVT_3 zf-RVT

Protein Analysis

221

Amino Acids

26.39

Weight (kDa)

8.39

Isoelectric Point (pI)

41.57

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 74 - 194 3.5e-39 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
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Orthologous Genes (Group: OG0000204)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G04625 AT1G27220 AT1G27250 AT1G27870 AT1G47497 AT1G47497 AT1G50160 AT1G52990 AT1G52990 AT1G77815 AT2G02650 AT2G04420 AT2G11205 AT2G13980 AT2G33160 AT2G46460 AT3G09510 AT3G23320 AT3G25270 AT3G32130 AT4G03292 AT4G09775 AT5G26617 AT5G44470 AT5G52115 AT5G65005
fragaria_vesca FvH4_1g25222 FvH4_1g28481 FvH4_3g03751 FvH4_3g24081 FvH4_3g35341 FvH4_5g31961 FvH4_6g20891 FvH4_6g23253 FvH4_6g31361 FvH4_6g53051
malus_domestica MD14G1209300.v1.1
prunus_persica Prupe.1G168800_v2.0.a1 Prupe.1G509200_v2.0.a1 Prupe.2G042000_v2.0.a1 Prupe.2G133200_v2.0.a1 Prupe.2G140300_v2.0.a1 Prupe.3G103800_v2.0.a1 Prupe.4G217300_v2.0.a1 Prupe.4G245300_v2.0.a1 Prupe.5G002600_v2.0.a1 Prupe.5G134600_v2.0.a1 Prupe.6G185900_v2.0.a1 Prupe.6G308300_v2.0.a1 Prupe.7G010700_v2.0.a1 Prupe.8G078100_v2.0.a1 Prupe.8G128400_v2.0.a1
pyrus_communis pycom01g14230 pycom03g12410 pycom08g15160 pycom08g21670 pycom10g25730 pycom10g25740 pycom11g15380 pycom14g10440 pycom14g11510 pycom15g31840 pycom16g02370
rosa_chinensis RchiOBHm_Chr4g0440421 RchiOBHm_Chr5g0005841 RchiOBHm_Chr6g0289481 RchiOBHm_Chr7g0218671
rosa_laevigata RLG00000011653 RLG00000031330 RLG00000031331 RLG00000032722
rosa_multiflora Rmu_co8243061.1_g000001 Rmu_sc0000470.1_g000036 Rmu_sc0000581.1_g000008 Rmu_sc0000666.1_g000017 Rmu_sc0000905.1_g000019 Rmu_sc0000976.1_g000013 Rmu_sc0001066.1_g000001 Rmu_sc0001103.1_g000007 Rmu_sc0001180.1_g000001 Rmu_sc0001643.1_g000034 Rmu_sc0001759.1_g000007 Rmu_sc0001850.1_g000051 Rmu_sc0001910.1_g000008 Rmu_sc0001981.1_g000015 Rmu_sc0001981.1_g000029 Rmu_sc0002209.1_g000015 Rmu_sc0002406.1_g000010 Rmu_sc0003743.1_g000002 Rmu_sc0006416.1_g000026 Rmu_sc0006513.1_g000006 Rmu_sc0006577.1_g000010 Rmu_sc0014652.1_g000001 Rmu_sc0016202.1_g000003
rosa_roxburghii Rroxscaffold_1G00001530 Rroxscaffold_1G00047250 Rroxscaffold_5G00340720 Rroxscaffold_7G00171110 Rroxscaffold_7G00177650
rosa_rugosa Rorug01G0044800 Rorug01G0204500 Rorug01G0224700 Rorug01G0267800 Rorug02G0038400 Rorug02G0107100 Rorug02G0180700 Rorug02G0363800 Rorug02G0374300 Rorug02G0491400 Rorug02G0491400 Rorug03G0104200 Rorug03G0109800 Rorug03G0334200 Rorug04G0007100 Rorug04G0061400.1 Rorug04G0080000 Rorug05G0152200 Rorug05G0188800 Rorug05G0234800 Rorug05G0239900 Rorug05G0284800 Rorug06G0044700 Rorug06G0205700 Rorug06G0266900 Rorug06G0440700 Rorug07G0037400 Rorug07G0192100 Rorug07G0196900 Rorug07G0237500 Rorug07G0336400.1 RorugPtG0002500.1
rosa_samantha Rh1BG014800 Rh1CG017500 Rh2CG332500 Rh3BG371800 Rh5AG046000 Rh5AG046100 Rh5BG044700 Rh5BG044800 Rh5BG248000 Rh5CG053600 Rh5CG053700 Rh5DG044500 Rh5DG044600 Rh6AG052800 Rh6AG315400 Rh6DG021400 Rh7AG409500
rosa_wichuraiana Rw3G007750 Rw3G018750 Rw4G008820 Rw5G004630

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 111
Acc65I GGTACC 1 cut(s) 396
AccB1I GGYRCC 1 cut(s) 396
AccB7I CCANNNNNTGG 1 cut(s) 361
AciI CCGC 1 cut(s) 244
AclI AACGTT 1 cut(s) 511
AcoI YGGCCR 1 cut(s) 369
AcsI RAATTY 2 cut(s) 49, 628
AcyI GRCGYC 1 cut(s) 539
AfaI GTAC 4 cut(s) 67, 93, 398, 624
AfiI CCNNNNNNNGG 2 cut(s) 203, 361
AgsI TTSAA 3 cut(s) 238, 416, 518
AjuI GAANNNNNNNTTGG 2 cut(s) 323, 355
AluBI AGCT 4 cut(s) 31, 359, 473, 494
AluI AGCT 4 cut(s) 31, 359, 473, 494
Alw26I GTCTC 1 cut(s) 273
AoxI GGCC 1 cut(s) 369
ApeKI GCWGC 3 cut(s) 156, 305, 376
ApoI RAATTY 2 cut(s) 49, 628
Asp718I GGTACC 1 cut(s) 396
AspLEI GCGC 1 cut(s) 112
AsuHPI GGTGA 1 cut(s) 431
BalI TGGCCA 1 cut(s) 371
BanI GGYRCC 1 cut(s) 396
BbvI GCAGC 3 cut(s) 143, 317, 388
BccI CCATC 3 cut(s) 201, 221, 261
BciVI GTATCC 1 cut(s) 477
BcoDI GTCTC 1 cut(s) 273
BfuI GTATCC 1 cut(s) 477
BisI GCNGC 3 cut(s) 157, 306, 377
BlsI GCNGC 3 cut(s) 158, 307, 378
BmiI GGNNCC 1 cut(s) 398
BsaAI YACGTR 1 cut(s) 488
BsaHI GRCGYC 1 cut(s) 539
BsaXI ACNNNNNCTCC 2 cut(s) 496, 526
Bsc4I CCNNNNNNNGG 2 cut(s) 203, 361
Bse118I RCCGGY 1 cut(s) 559
BseGI GGATG 3 cut(s) 91, 212, 272
BseLI CCNNNNNNNGG 2 cut(s) 203, 361
BseMII CTCAG 1 cut(s) 276
BseRI GAGGAG 1 cut(s) 31
BseXI GCAGC 3 cut(s) 143, 317, 388
BshFI GGCC 1 cut(s) 371
BshNI GGYRCC 1 cut(s) 396
BsiSI CCGG 1 cut(s) 560
BslI CCNNNNNNNGG 2 cut(s) 203, 361
BsmAI GTCTC 1 cut(s) 273
BsmBI CGTCTC 1 cut(s) 273
BsmI GAATGC 1 cut(s) 112
BsnI GGCC 1 cut(s) 371
BspACI CCGC 1 cut(s) 244
BspANI GGCC 1 cut(s) 371
BspCNI CTCAG 1 cut(s) 275
BspLI GGNNCC 1 cut(s) 398
BspT107I GGYRCC 1 cut(s) 396
BsrFI RCCGGY 1 cut(s) 559
BssAI RCCGGY 1 cut(s) 559
BssNI GRCGYC 1 cut(s) 539
Bst4CI ACNGT 3 cut(s) 145, 401, 653
BstACI GRCGYC 1 cut(s) 539
BstBAI YACGTR 1 cut(s) 488
BstC8I GCNNGC 2 cut(s) 78, 573
BstDEI CTNAG 1 cut(s) 262
BstF5I GGATG 3 cut(s) 91, 212, 272
BstHHI GCGC 1 cut(s) 112
BstMAI GTCTC 1 cut(s) 273
BstMWI GCNNNNNNNGC 1 cut(s) 311
BstV1I GCAGC 3 cut(s) 143, 317, 388
BstXI CCANNNNNNTGG 1 cut(s) 207
BsuI GTATCC 1 cut(s) 477
BsuRI GGCC 1 cut(s) 371
BtsCI GGATG 3 cut(s) 91, 212, 272
BtsIMutI CAGTG 1 cut(s) 649
Cac8I GCNNGC 2 cut(s) 78, 573
CfoI GCGC 1 cut(s) 112
Cfr10I RCCGGY 1 cut(s) 559
CseI GACGC 1 cut(s) 547
Csp6I GTAC 4 cut(s) 66, 92, 397, 623
CviAII CATG 3 cut(s) 367, 373, 501
CviJI RGCY 9 cut(s) 31, 156, 231, 271, 359, 371, 473, 494, 563
CviKI_1 RGCY 9 cut(s) 31, 156, 231, 271, 359, 371, 473, 494, 563
CviQI GTAC 4 cut(s) 66, 92, 397, 623
DdeI CTNAG 1 cut(s) 262
EaeI YGGCCR 1 cut(s) 369
EcoT22I ATGCAT 1 cut(s) 465
Esp3I CGTCTC 1 cut(s) 273
FaeI CATG 3 cut(s) 370, 376, 504
FaiI YATR 8 cut(s) 120, 225, 297, 368, 374, 381, 502, 569
FatI CATG 3 cut(s) 366, 372, 500
Fnu4HI GCNGC 3 cut(s) 157, 306, 377
FokI GGATG 3 cut(s) 98, 219, 279
Fsp4HI GCNGC 3 cut(s) 157, 306, 377
FspI TGCGCA 1 cut(s) 111
GlaI GCGC 1 cut(s) 111
GluI GCNGC 3 cut(s) 157, 306, 377
HaeIII GGCC 1 cut(s) 371
HapII CCGG 1 cut(s) 560
HgaI GACGC 1 cut(s) 547
HhaI GCGC 1 cut(s) 112
Hin1I GRCGYC 1 cut(s) 539
Hin1II CATG 3 cut(s) 370, 376, 504
Hin6I GCGC 1 cut(s) 110
HinP1I GCGC 1 cut(s) 110
HindIII AAGCTT 2 cut(s) 357, 492
HinfI GANTC 4 cut(s) 133, 170, 291, 388
HpaII CCGG 1 cut(s) 560
HphI GGTGA 1 cut(s) 431
Hpy166II GTNNAC 2 cut(s) 68, 350
Hpy188I TCNGA 3 cut(s) 132, 183, 278
Hpy188III TCNNGA 2 cut(s) 167, 264
Hpy8I GTNNAC 2 cut(s) 68, 350
HpyAV CCTTC 2 cut(s) 146, 410
HpyCH4III ACNGT 3 cut(s) 145, 401, 653
HpyCH4IV ACGT 3 cut(s) 90, 487, 511
HpyCH4V TGCA 5 cut(s) 159, 219, 376, 463, 575
HpyF10VI GCNNNNNNNGC 1 cut(s) 311
HpyF3I CTNAG 1 cut(s) 262
HpySE526I ACGT 3 cut(s) 90, 487, 511
Hsp92I GRCGYC 1 cut(s) 539
Hsp92II CATG 3 cut(s) 370, 376, 504
HspAI GCGC 1 cut(s) 110
KpnI GGTACC 1 cut(s) 400
LmnI GCTCC 3 cut(s) 302, 470, 504
LpnPI CCDG 5 cut(s) 41, 59, 249, 416, 573
Lsp1109I GCAGC 3 cut(s) 143, 317, 388
MaeII ACGT 3 cut(s) 90, 487, 511
MboII GAAGA 2 cut(s) 449, 530
MlsI TGGCCA 1 cut(s) 371
MluCI AATT 4 cut(s) 49, 238, 478, 628
MluNI TGGCCA 1 cut(s) 371
MlyI GAGTC 1 cut(s) 397
MmeI TCCRAC 2 cut(s) 298, 515
MnlI CCTC 2 cut(s) 9, 314
Mox20I TGGCCA 1 cut(s) 371
Mph1103I ATGCAT 1 cut(s) 465
MscI TGGCCA 1 cut(s) 371
MseI TTAA 3 cut(s) 213, 477, 664
MslI CAYNNNNRTG 1 cut(s) 371
Msp20I TGGCCA 1 cut(s) 371
MspI CCGG 1 cut(s) 560
Mva1269I GAATGC 1 cut(s) 112
MwoI GCNNNNNNNGC 1 cut(s) 311
NlaIII CATG 3 cut(s) 370, 376, 504
NlaIV GGNNCC 1 cut(s) 398
NmeAIII GCCGAG 1 cut(s) 567
NsbI TGCGCA 1 cut(s) 111
NsiI ATGCAT 1 cut(s) 465
PcsI WCGNNNNNNNCGW 1 cut(s) 545
PctI GAATGC 1 cut(s) 112
PfeI GAWTC 3 cut(s) 133, 170, 291
PflMI CCANNNNNTGG 1 cut(s) 361
PkrI GCNGC 3 cut(s) 158, 307, 378
PleI GAGTC 1 cut(s) 396
PpsI GAGTC 1 cut(s) 396
Ppu21I YACGTR 1 cut(s) 488
Psp1406I AACGTT 1 cut(s) 511
PspN4I GGNNCC 1 cut(s) 398
RsaI GTAC 4 cut(s) 67, 93, 398, 624
RsaNI GTAC 4 cut(s) 66, 92, 397, 623
RseI CAYNNNNRTG 1 cut(s) 371
SaqAI TTAA 3 cut(s) 213, 477, 664
SatI GCNGC 3 cut(s) 157, 306, 377
SchI GAGTC 1 cut(s) 397
SetI ASST 9 cut(s) 33, 93, 361, 421, 435, 475, 490, 496, 514
SmiMI CAYNNNNRTG 1 cut(s) 371
Sse9I AATT 4 cut(s) 49, 238, 478, 628
SsiI CCGC 1 cut(s) 244
TaaI ACNGT 3 cut(s) 145, 401, 653
TaiI ACGT 3 cut(s) 93, 490, 514
TaqI TCGA 1 cut(s) 173
TasI AATT 4 cut(s) 49, 238, 478, 628
TatI WGTACW 1 cut(s) 65
TfiI GAWTC 3 cut(s) 133, 170, 291
Tru1I TTAA 3 cut(s) 213, 477, 664
Tru9I TTAA 3 cut(s) 213, 477, 664
TscAI CASTG 1 cut(s) 656
TseI GCWGC 3 cut(s) 156, 305, 376
TspDTI ATGAA 1 cut(s) 344
TspRI CASTG 1 cut(s) 656
Van91I CCANNNNNTGG 1 cut(s) 361
XapI RAATTY 2 cut(s) 49, 628
XcmI CCANNNNNNNNNTGG 1 cut(s) 204
Zsp2I ATGCAT 1 cut(s) 465
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.