Rroxscaffold_1G00054760

At4g26485-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000364
Physical Location & Seq
Forward (+)
76114136 .. 76114950
815 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00054760.1

Sequence Viewer

Length: 627 bp
ATGGCACAAGAGAAAAGAATTGTGCATTATAGCAGCTCTCAGAAGATACTCTTGGTGGGTGAGGGAGACTTTTCCTTTGCTGCTTGTTTAGCCACAGCATTTGGCTCTGCTGCCAGCATAGTTGCTACCTCACTCAACTCCAGAGAGGAATTAAGGGTTAATTACTCAAATGCTATGAGCCACTTGAAGGAATTAGAGGAAAAGGGATGCACAATCTTGCATGGAGTTGACGTGCATACTATGAGCCAACACCCCCAACTTATTTACAGGAGGTTTGATTGTATAATCTATAATTTTCCTCATGCGGGTTACTTGGGAGGTTCTTTTTCATCGGAAAGCGATAAATTCCAAATTCTTGCACATAAGAACTTGGTCAAGGGATACTTCATGAGTGCACGTCAAATGCTGTGTAGCCGTGGACAAATTCATGTGACACACAAGACAAACTTTCCTTTTACAGAGTGGGAAATAGTGAATTTGGCAAAAGAGGCTGGGTTATATCTGGTTGAAGAAGAAACATTCTACCCATGGCAATATCCAGGTTATGTAAATAAAAGAGGAGCTGGGAACTGCGATGAAAGCTTTAGAGTTGGAATGTCTAGCACCTTCAAATTTGCTAAGTACTAG
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
DUF2431

Protein Analysis

208

Amino Acids

23.55

Weight (kDa)

7.69

Isoelectric Point (pI)

53.82

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
BMT5-like PF10354 17 - 186 2.1e-52 rRNA (uridine-N3-)-methyltransferase BTM5-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: OG0000364)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G26485
fragaria_vesca FvH4_3g14860 FvH4_3g14860 FvH4_3g14861 FvH4_3g14862 FvH4_3g14862 FvH4_3g14880 FvH4_3g14880 FvH4_3g14890 FvH4_3g14891 FvH4_3g14892 FvH4_3g14901 FvH4_3g14902
malus_domestica MD05G1233500.v1.1 MD05G1233600.v1.1 MD10G1209900.v1.1 MD10G1210000.v1.1 MD10G1210100.v1.1 MD10G1210300.v1.1 MD10G1210400.v1.1
prunus_persica Prupe.4G132900_v2.0.a1 Prupe.4G133200_v2.0.a1 Prupe.4G133200_v2.0.a1 Prupe.4G133200_v2.0.a1 Prupe.4G133300_v2.0.a1 Prupe.4G133300_v2.0.a1 Prupe.4G133400_v2.0.a1 Prupe.4G133500_v2.0.a1 Prupe.4G133500_v2.0.a1 Prupe.4G133600_v2.0.a1 Prupe.4G133600_v2.0.a1
pyrus_communis pycom05g21110 pycom05g21120 pycom10g17840
rosa_chinensis RchiOBHm_Chr5g0024361 RchiOBHm_Chr5g0024391 RchiOBHm_Chr5g0024411 RchiOBHm_Chr5g0024431 RchiOBHm_Chr5g0024451 RchiOBHm_Chr5g0024461 RchiOBHm_Chr5g0024471 RchiOBHm_Chr5g0024481 RchiOBHm_Chr5g0024501 RchiOBHm_Chr5g0024511
rosa_laevigata RLG00000032799 RLG00000032800 RLG00000032801 RLG00000032802 RLG00000032803
rosa_multiflora Rmu_sc0000761.1_g000010 Rmu_sc0000761.1_g000014 Rmu_sc0000761.1_g000018 Rmu_sc0000761.1_g000025 Rmu_sc0005861.1_g000002 Rmu_sc0005861.1_g000004 Rmu_sc0005861.1_g000007 Rmu_sc0011809.1_g000001 Rmu_sc0011809.1_g000006
rosa_roxburghii Rroxscaffold_1G00054740 Rroxscaffold_1G00054750 Rroxscaffold_1G00054760 Rroxscaffold_1G00054770 Rroxscaffold_1G00054780 Rroxscaffold_1G00054790 Rroxscaffold_1G00054840 Rroxscaffold_1G00055860 Rroxscaffold_3G00237770 Rroxscaffold_6G00389330
rosa_rugosa Rorug05G0083300 Rorug05G0083400 Rorug05G0083400
rosa_samantha Rh5AG174100 Rh5AG174300 Rh5AG174600 Rh5AG174700 Rh5AG175000 Rh5AG175300 Rh5BG171000 Rh5BG171400 Rh5BG171500 Rh5BG171600 Rh5BG171700 Rh5BG172100 Rh5BG172300 Rh5BG172500 Rh5CG187400 Rh5CG187700 Rh5CG187900 Rh5CG188000 Rh5CG188200 Rh5CG188400 Rh5CG188500 Rh5CG188600 Rh5DG173200 Rh5DG173400 Rh5DG173500 Rh5DG173700 Rh5DG173900 Rh5DG174000 Rh5DG174100
rosa_wichuraiana Rw5G015700 Rw5G015730 Rw5G015740 Rw5G015770 Rw5G015790

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 305
AcsI RAATTY 5 cut(s) 344, 351, 423, 475, 611
AfaI GTAC 1 cut(s) 623
AfiI CCNNNNNNNGG 2 cut(s) 187, 305
AgsI TTSAA 3 cut(s) 187, 509, 610
AjiI CACGTC 2 cut(s) 232, 398
AjnI CCWGG 1 cut(s) 538
AjuI GAANNNNNNNTTGG 2 cut(s) 35, 67
AluBI AGCT 3 cut(s) 36, 563, 582
AluI AGCT 3 cut(s) 36, 563, 582
Alw21I GWGCWC 1 cut(s) 397
Alw26I GTCTC 1 cut(s) 60
Alw44I GTGCAC 1 cut(s) 393
ApaLI GTGCAC 1 cut(s) 393
ApeKI GCWGC 3 cut(s) 33, 80, 110
ApoI RAATTY 5 cut(s) 344, 351, 423, 475, 611
ArsI GACNNNNNNTTYG 2 cut(s) 59, 91
AsuHPI GGTGA 1 cut(s) 71
BaeGI GKGCMC 1 cut(s) 397
Bbv12I GWGCWC 1 cut(s) 397
BbvI GCAGC 3 cut(s) 45, 67, 97
BceAI ACGGC 1 cut(s) 399
BciT130I CCWGG 1 cut(s) 540
BciVI GTATCC 1 cut(s) 374
BcoDI GTCTC 1 cut(s) 60
BfaI CTAG 2 cut(s) 600, 625
BfuI GTATCC 1 cut(s) 374
BisI GCNGC 3 cut(s) 34, 81, 111
BlsI GCNGC 3 cut(s) 35, 82, 112
BmcAI AGTACT 1 cut(s) 623
Bme1390I CCNGG 1 cut(s) 540
BmgBI CACGTC 2 cut(s) 232, 398
BmrFI CCNGG 1 cut(s) 540
BmsI GCATC 1 cut(s) 197
BpmI CTGGAG 1 cut(s) 124
BsaJI CCNNGG 2 cut(s) 415, 527
BsaXI ACNNNNNCTCC 2 cut(s) 216, 246
Bsc4I CCNNNNNNNGG 2 cut(s) 187, 305
BseBI CCWGG 1 cut(s) 540
BseDI CCNNGG 2 cut(s) 415, 527
BseGI GGATG 1 cut(s) 212
BseLI CCNNNNNNNGG 2 cut(s) 187, 305
BseMII CTCAG 1 cut(s) 53
BseRI GAGGAG 1 cut(s) 573
BseSI GKGCMC 1 cut(s) 397
BseXI GCAGC 3 cut(s) 45, 67, 97
BseYI CCCAGC 2 cut(s) 491, 563
BsiHKAI GWGCWC 1 cut(s) 397
BslI CCNNNNNNNGG 2 cut(s) 187, 305
BsmAI GTCTC 1 cut(s) 60
Bsp1286I GDGCHC 1 cut(s) 397
Bsp19I CCATGG 1 cut(s) 527
BspACI CCGC 1 cut(s) 305
BspCNI CTCAG 1 cut(s) 52
BspHI TCATGA 1 cut(s) 387
BssECI CCNNGG 2 cut(s) 415, 527
BssT1I CCWWGG 1 cut(s) 527
Bst2UI CCWGG 1 cut(s) 540
BstC8I GCNNGC 1 cut(s) 115
BstDEI CTNAG 2 cut(s) 39, 618
BstDSI CCRYGG 2 cut(s) 415, 527
BstF5I GGATG 1 cut(s) 212
BstMAI GTCTC 1 cut(s) 60
BstMWI GCNNNNNNNGC 3 cut(s) 89, 488, 579
BstNI CCWGG 1 cut(s) 540
BstSCI CCNGG 1 cut(s) 538
BstSLI GKGCMC 1 cut(s) 397
BstV1I GCAGC 3 cut(s) 45, 67, 97
BsuI GTATCC 1 cut(s) 374
BtgI CCRYGG 2 cut(s) 415, 527
BtgZI GCGATG 1 cut(s) 588
BtrI CACGTC 2 cut(s) 232, 398
BtsCI GGATG 1 cut(s) 212
Cac8I GCNNGC 1 cut(s) 115
CciI TCATGA 1 cut(s) 387
Csp6I GTAC 1 cut(s) 622
CspCI CAANNNNNGTGG 2 cut(s) 82, 117
CviAII CATG 5 cut(s) 221, 302, 388, 428, 528
CviJI RGCY 9 cut(s) 36, 92, 105, 180, 246, 414, 491, 563, 582
CviKI_1 RGCY 9 cut(s) 36, 92, 105, 180, 246, 414, 491, 563, 582
CviQI GTAC 1 cut(s) 622
DdeI CTNAG 2 cut(s) 39, 618
Eco130I CCWWGG 1 cut(s) 527
EcoRII CCWGG 1 cut(s) 538
EcoT14I CCWWGG 1 cut(s) 527
ErhI CCWWGG 1 cut(s) 527
FaeI CATG 5 cut(s) 224, 305, 391, 431, 531
FalI AAGNNNNNCTT 6 cut(s) 35, 67, 368, 400, 431, 463
FatI CATG 5 cut(s) 220, 301, 387, 427, 527
FauI CCCGC 1 cut(s) 298
Fnu4HI GCNGC 3 cut(s) 34, 81, 111
FokI GGATG 1 cut(s) 219
Fsp4HI GCNGC 3 cut(s) 34, 81, 111
FspBI CTAG 2 cut(s) 600, 625
GluI GCNGC 3 cut(s) 34, 81, 111
GsaI CCCAGC 2 cut(s) 495, 567
GsuI CTGGAG 1 cut(s) 124
Hin1II CATG 5 cut(s) 224, 305, 391, 431, 531
HincII GTYRAC 1 cut(s) 229
HindII GTYRAC 1 cut(s) 229
HindIII AAGCTT 1 cut(s) 580
HphI GGTGA 1 cut(s) 71
Hpy166II GTNNAC 3 cut(s) 229, 395, 419
Hpy188I TCNGA 2 cut(s) 42, 334
Hpy188III TCNNGA 2 cut(s) 141, 388
Hpy8I GTNNAC 3 cut(s) 229, 395, 419
HpyAV CCTTC 2 cut(s) 181, 616
HpyCH4IV ACGT 2 cut(s) 231, 397
HpyCH4V TGCA 6 cut(s) 25, 210, 220, 235, 359, 395
HpyF10VI GCNNNNNNNGC 3 cut(s) 89, 488, 579
HpyF3I CTNAG 2 cut(s) 39, 618
HpySE526I ACGT 2 cut(s) 231, 397
Hsp92II CATG 5 cut(s) 224, 305, 391, 431, 531
LmnI GCTCC 1 cut(s) 560
LpnPI CCDG 8 cut(s) 127, 154, 253, 477, 488, 525, 549, 552
Lsp1109I GCAGC 3 cut(s) 45, 67, 97
LweI GCATC 1 cut(s) 197
MaeI CTAG 2 cut(s) 600, 625
MaeII ACGT 2 cut(s) 231, 397
MaeIII GTNAC 2 cut(s) 308, 430
MboII GAAGA 3 cut(s) 55, 521, 524
MhlI GDGCHC 1 cut(s) 397
MmeI TCCRAC 1 cut(s) 571
MnlI CCTC 9 cut(s) 55, 139, 139, 190, 264, 309, 311, 481, 551
MseI TTAA 2 cut(s) 152, 159
MspR9I CCNGG 1 cut(s) 540
MvaI CCWGG 1 cut(s) 540
MwoI GCNNNNNNNGC 3 cut(s) 89, 488, 579
NcoI CCATGG 1 cut(s) 527
NlaIII CATG 5 cut(s) 224, 305, 391, 431, 531
NmuCI GTSAC 1 cut(s) 430
PagI TCATGA 1 cut(s) 387
PkrI GCNGC 3 cut(s) 35, 82, 112
Psp6I CCWGG 1 cut(s) 538
PspFI CCCAGC 2 cut(s) 491, 563
PspGI CCWGG 1 cut(s) 538
RsaI GTAC 1 cut(s) 623
RsaNI GTAC 1 cut(s) 622
SaqAI TTAA 2 cut(s) 152, 159
SatI GCNGC 3 cut(s) 34, 81, 111
ScaI AGTACT 1 cut(s) 623
ScrFI CCNGG 1 cut(s) 540
SduI GDGCHC 1 cut(s) 397
SfaNI GCATC 1 cut(s) 197
SsiI CCGC 1 cut(s) 305
SspMI CTAG 2 cut(s) 600, 625
StyD4I CCNGG 1 cut(s) 538
StyI CCWWGG 1 cut(s) 527
TaiI ACGT 2 cut(s) 234, 400
TatI WGTACW 1 cut(s) 621
Tru1I TTAA 2 cut(s) 152, 159
Tru9I TTAA 2 cut(s) 152, 159
TseFI GTSAC 1 cut(s) 430
TseI GCWGC 3 cut(s) 33, 80, 110
Tsp45I GTSAC 1 cut(s) 430
TspDTI ATGAA 4 cut(s) 318, 376, 416, 591
VneI GTGCAC 1 cut(s) 393
XapI RAATTY 5 cut(s) 344, 351, 423, 475, 611
XspI CTAG 2 cut(s) 600, 625
ZrmI AGTACT 1 cut(s) 623
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.