MD00G1122500.v1.1

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr00
OG0000468
Physical Location & Seq
Reverse (-)
26217561 .. 26219919
2359 bp
Loading structure...
UTR
Exon/CDS
Intron
MD00G1122500.v1.1.491

Sequence Viewer

Length: 450 bp
ATGGATAGGAATGCATTTGCAGTTTTATGTGATTTACTACAAACTCGTGGTGGGTTGGTAGATGATGGTCATGTTACAATAGAGGAGCAAGTTGCTACTTTTGTTAACATATTAGCCCACCACAATAAAAATAGGTCAATGCAGGTTAGATTCATTAGGTTTGGTGAAACTATTAGTCGGTATATTCGCAGAGTATTGCGTGCGTTGCTCAATTTGCAAGAGGTGTTGTTTGCAAAACCAACCCCTATCCCGGAGGATTGCATGGAATCGAGATGGAAATGCTTTAAGGGTTGCTTAGGAGTGCTAGATGGAACGATTGCGATGAGACCTTCAAGATGCCTCCGACTTCACCTACCCCATCTCCTTCTGTTGGTACATCCAGTGCATCTCAACCTCTTAGGAAGAGGAAGAGGAAGAGGAATAAGAATGATGCTGATGCAAATATTGTAG
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
DDE_Tnp_4

Protein Analysis

150

Amino Acids

17.09

Weight (kDa)

10.19

Isoelectric Point (pI)

53.04

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF8040 PF26138 1 - 70 3.8e-19 Domain of unknown function (DUF8040)
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: OG0000468)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g04030 FvH4_2g09411 FvH4_3g15551 FvH4_3g36421 FvH4_4g11701 FvH4_5g36381 FvH4_6g09143 FvH4_6g09144 FvH4_6g21972
malus_domestica MD00G1096500.v1.1 MD00G1122500.v1.1 MD02G1090600.v1.1 MD02G1173300.v1.1 MD05G1202800.v1.1 MD14G1123600.v1.1
prunus_persica Prupe.1G083600_v2.0.a1 Prupe.1G245300_v2.0.a1 Prupe.5G002100_v2.0.a1 Prupe.6G061200_v2.0.a1
pyrus_communis pycom01g07060 pycom02g13920 pycom04g11780 pycom04g13480 pycom04g21940 pycom06g07950 pycom07g03740 pycom07g03980 pycom09g02010 pycom09g02020 pycom09g11510 pycom09g14260 pycom10g02500 pycom10g15690 pycom12g08730 pycom12g08740 pycom14g19840 pycom15g16780 pycom15g24940 pycom15g25660 pycom16g21630 pycom16g26320
rosa_chinensis RchiOBHm_Chr1g0330371 RchiOBHm_Chr1g0331991 RchiOBHm_Chr6g0300321
rosa_laevigata RLG00000013795
rosa_multiflora Rmu_sc0000060.1_g000010 Rmu_sc0000288.1_g000044 Rmu_sc0002219.1_g000002 Rmu_sc0003995.1_g000003
rosa_roxburghii Rroxscaffold_1G00059020 Rroxscaffold_2G00108450 Rroxscaffold_2G00112460 Rroxscaffold_5G00375700 Rroxscaffold_5G00381640 Rroxscaffold_7G00158590
rosa_rugosa Rorug01G0237300 Rorug01G0237400 Rorug01G0237500 Rorug02G0051900 Rorug03G0260600 Rorug03G0285800 Rorug04G0076800 Rorug04G0162600 Rorug07G0264500 Rorug07G0264500
rosa_samantha Rh2DG003500 Rh3CG244800 Rh4CG334200 Rh5AG318300 Rh5BG549000 Rh7AG126400 Rh7CG118500 Rh7CG154500 Rh7DG025400
rosa_wichuraiana Rw1G026390 Rw2G005400 Rw2G034490 Rw3G019530 Rw3G028000 Rw4G010490 Rw5G010830 Rw5G023340 Rw5G026580 Rw5G041150 Rw6G003010 Rw6G003290 Rw6G010630 Rw6G021220 Rw6G035650 Rw7G014310

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 133
AfaI GTAC 1 cut(s) 375
AfiI CCNNNNNNNGG 2 cut(s) 250, 370
AgsI TTSAA 1 cut(s) 333
Alw26I GTCTC 1 cut(s) 319
AsuC2I CCSGG 1 cut(s) 251
AsuHPI GGTGA 2 cut(s) 176, 341
BauI CACGAG 1 cut(s) 45
BccI CCATC 4 cut(s) 59, 267, 302, 366
BcnI CCSGG 1 cut(s) 251
BcoDI GTCTC 1 cut(s) 319
BfaI CTAG 1 cut(s) 305
BfuAI ACCTGC 1 cut(s) 133
Bme1390I CCNGG 1 cut(s) 251
BmrFI CCNGG 1 cut(s) 251
BmsI GCATC 4 cut(s) 326, 394, 420, 426
Bpu10I CCTNAGC 1 cut(s) 295
BpuMI CCSGG 1 cut(s) 251
BsaI GGTCTC 1 cut(s) 319
BsaXI ACNNNNNCTCC 2 cut(s) 345, 375
Bsc4I CCNNNNNNNGG 2 cut(s) 250, 370
Bse1I ACTGG 1 cut(s) 380
BseGI GGATG 1 cut(s) 376
BseLI CCNNNNNNNGG 2 cut(s) 250, 370
BseNI ACTGG 1 cut(s) 380
BseRI GAGGAG 1 cut(s) 98
BsiSI CCGG 1 cut(s) 251
BslI CCNNNNNNNGG 2 cut(s) 250, 370
BsmAI GTCTC 1 cut(s) 319
BsmI GAATGC 1 cut(s) 16
Bso31I GGTCTC 1 cut(s) 319
BspMI ACCTGC 1 cut(s) 133
BspTNI GGTCTC 1 cut(s) 319
BsrI ACTGG 1 cut(s) 380
BssSI CACGAG 1 cut(s) 45
Bst2BI CACGAG 1 cut(s) 45
Bst6I CTCTTC 3 cut(s) 397, 403, 409
BstC8I GCNNGC 1 cut(s) 201
BstDEI CTNAG 2 cut(s) 295, 397
BstF5I GGATG 1 cut(s) 376
BstMAI GTCTC 1 cut(s) 319
BstMWI GCNNNNNNNGC 2 cut(s) 205, 214
BstSCI CCNGG 1 cut(s) 249
BtgZI GCGATG 1 cut(s) 335
BtsCI GGATG 1 cut(s) 376
BtsIMutI CAGTG 1 cut(s) 387
BveI ACCTGC 1 cut(s) 133
Cac8I GCNNGC 1 cut(s) 201
Csp6I GTAC 1 cut(s) 374
CviAII CATG 2 cut(s) 71, 262
CviJI RGCY 1 cut(s) 116
CviKI_1 RGCY 1 cut(s) 116
CviQI GTAC 1 cut(s) 374
DdeI CTNAG 2 cut(s) 295, 397
Eam1104I CTCTTC 3 cut(s) 397, 403, 409
EarI CTCTTC 3 cut(s) 397, 403, 409
Eco31I GGTCTC 1 cut(s) 319
EcoT22I ATGCAT 1 cut(s) 16
FaeI CATG 2 cut(s) 74, 265
FaiI YATR 5 cut(s) 28, 72, 110, 183, 263
FalI AAGNNNNNCTT 2 cut(s) 278, 310
FatI CATG 2 cut(s) 70, 261
FokI GGATG 1 cut(s) 363
FspBI CTAG 1 cut(s) 305
HapII CCGG 1 cut(s) 251
Hin1II CATG 2 cut(s) 74, 265
HincII GTYRAC 1 cut(s) 106
HindII GTYRAC 1 cut(s) 106
HinfI GANTC 2 cut(s) 150, 266
HpaI GTTAAC 1 cut(s) 106
HpaII CCGG 1 cut(s) 251
HphI GGTGA 2 cut(s) 176, 341
Hpy166II GTNNAC 1 cut(s) 106
Hpy188I TCNGA 1 cut(s) 344
Hpy188III TCNNGA 2 cut(s) 270, 333
Hpy8I GTNNAC 1 cut(s) 106
HpyAV CCTTC 2 cut(s) 339, 374
HpyCH4V TGCA 8 cut(s) 14, 20, 142, 217, 233, 261, 385, 439
HpyF10VI GCNNNNNNNGC 2 cut(s) 205, 214
HpyF3I CTNAG 2 cut(s) 295, 397
Hsp92II CATG 2 cut(s) 74, 265
KspAI GTTAAC 1 cut(s) 106
LmnI GCTCC 1 cut(s) 85
LpnPI CCDG 3 cut(s) 128, 264, 393
LweI GCATC 4 cut(s) 326, 394, 420, 426
MaeI CTAG 1 cut(s) 305
MaeIII GTNAC 1 cut(s) 73
MboII GAAGA 3 cut(s) 414, 420, 426
MluCI AATT 1 cut(s) 211
MmeI TCCRAC 1 cut(s) 367
MnlI CCTC 8 cut(s) 76, 214, 247, 350, 398, 404, 404, 410
Mph1103I ATGCAT 1 cut(s) 16
MseI TTAA 2 cut(s) 105, 285
MspI CCGG 1 cut(s) 251
MspR9I CCNGG 1 cut(s) 251
Mva1269I GAATGC 1 cut(s) 16
MwoI GCNNNNNNNGC 2 cut(s) 205, 214
NciI CCSGG 1 cut(s) 251
NlaIII CATG 2 cut(s) 74, 265
NsiI ATGCAT 1 cut(s) 16
PctI GAATGC 1 cut(s) 16
PfeI GAWTC 2 cut(s) 150, 266
PfoI TCCNGGA 1 cut(s) 249
RsaI GTAC 1 cut(s) 375
RsaNI GTAC 1 cut(s) 374
SaqAI TTAA 2 cut(s) 105, 285
ScrFI CCNGG 1 cut(s) 251
SetI ASST 7 cut(s) 137, 147, 161, 225, 331, 354, 396
SfaNI GCATC 4 cut(s) 326, 394, 420, 426
Sse9I AATT 1 cut(s) 211
SspI AATATT 1 cut(s) 444
SspMI CTAG 1 cut(s) 305
StyD4I CCNGG 1 cut(s) 249
TaqI TCGA 1 cut(s) 269
TasI AATT 1 cut(s) 211
TfiI GAWTC 2 cut(s) 150, 266
Tru1I TTAA 2 cut(s) 105, 285
Tru9I TTAA 2 cut(s) 105, 285
TscAI CASTG 1 cut(s) 387
TspDTI ATGAA 1 cut(s) 142
TspRI CASTG 1 cut(s) 387
XspI CTAG 1 cut(s) 305
Zsp2I ATGCAT 1 cut(s) 16
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.