Rroxscaffold_5G00345950

Pre-mRNA-splicing factor ATP-dependent RNA

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000671
Physical Location & Seq
Reverse (-)
16553583 .. 16555003
1421 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00345950.1

Sequence Viewer

Length: 795 bp
ATGGGACGGAACTGTGAGGCAGTGGACGAGTTCCATAAAGAGTTGAAGCAAAACGGTATTGACATGCCTGAAAATGTCATGTCTATGTTGTTAACAATTATTCACTCTATTCTTCCTCCTACAAAGGTTTCTGAAAGGATCAAAATCCCAGACATGGCAATTAATAATAGCATGCAAAGGCATGGAGATGATAAAAGAGGGGAGGAAGTGGGAACCATCTACACTGATGTTCTCTTTGGATTGCTAAAGCAACTTGTTAAACGACGTCCTGATCTTCACTTGATTGTCACATCTACCACATTGGATACTGAGAAGTGTTCGGCATATTTCTTCCACGGTAAGATATTTGCTGTTCCCGGTAGAACTTATCCTGTAGAATTGTTCTACTTGAATCAGCCCGAAAGGGATTACTTGGATTCAGCTCTATTAACTATTGTGCAGATTCACTTGACAGAATCTGAGGGTGACATACTTCTCTTCTTGACTGTGTATGCAAAGCAAAATGTGTATAATCCGAAGAAAGGGATTGATCAGCTGACTGTGACTCCAATTTCACAAGCATCTGCTAAGCAACGAGCTAGATGTGCTGGGCGGACAGGACCAGGCAACTATTACCACCTTTACACTGAGGTTGCATTTAAGAATGGGATGTCTCCTACTACACTTCCAGAAATCCAGAGAACAAATCTTGTATATACCACACTTATGATGAAAGCAATGGGGATAAACGAGGTTCTATCTTTCGACTTTATGGATCCACCGCCTTCCCAAGCGCTTATTTCTGCTTCTAAATAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03040 map03040
Pfam Domains
Protein Families
DEAD HA2 Helicase_C OB_NTP_bind S1

Protein Analysis

264

Amino Acids

29.76

Weight (kDa)

6.66

Isoelectric Point (pI)

36.56

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0000671)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G26560
fragaria_vesca FvH4_3g44820 FvH4_4g07500 FvH4_4g07500 FvH4_4g07500 FvH4_4g07850 FvH4_4g07850 FvH4_7g12750
malus_domestica MD09G1231900.v1.1 MD15G1068900.v1.1 MD15G1069000.v1.1 MD16G1254900.v1.1 MD17G1229800.v1.1
prunus_persica Prupe.1G082300_v2.0.a1 Prupe.1G368500_v2.0.a1 Prupe.1G422500_v2.0.a1 Prupe.2G077500_v2.0.a1 Prupe.2G077900_v2.0.a1 Prupe.2G077900_v2.0.a1 Prupe.2G078200_v2.0.a1
pyrus_communis pycom08g06730 pycom09g15120 pycom15g06530 pycom16g21640 pycom17g23220 pycom17g23230 pycom17g23240
rosa_chinensis RchiOBHm_Chr1g0351781 RchiOBHm_Chr4g0400041 RchiOBHm_Chr4g0401121 RchiOBHm_Chr5g0079971 RchiOBHm_Chr5g0081521 RchiOBHm_Chr7g0219091
rosa_laevigata RLG00000009162 RLG00000009217 RLG00000028384 RLG00000036944
rosa_multiflora Rmu_co8434143.1_g000001 Rmu_sc0001909.1_g000017 Rmu_sc0001909.1_g000025 Rmu_sc0001933.1_g000012 Rmu_sc0004005.1_g000001 Rmu_sc0007702.1_g000002 Rmu_sc0010608.1_g000004
rosa_roxburghii Rroxscaffold_1G00002030 Rroxscaffold_4G00303550 Rroxscaffold_5G00345000 Rroxscaffold_5G00345950 Rroxscaffold_5G00345970
rosa_rugosa Rorug01G0221400 Rorug01G0221500 Rorug04G0022300 Rorug04G0022400 Rorug04G0028000 Rorug05G0476900
rosa_samantha Rh1AG235400 Rh1BG205800 Rh1CG220000 Rh1DG232900 Rh2AG475800 Rh2BG083000 Rh2CG085000 Rh4AG097800 Rh4AG105600 Rh4AG109800 Rh4BG095800 Rh4CG107200 Rh4CG114200 Rh4DG092600 Rh4DG097800 Rh5BG553100 Rh5DG563200
rosa_wichuraiana Rw1G020490 Rw4G008160 Rw4G008530 Rw5G049150

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 268
AciI CCGC 2 cut(s) 592, 761
AclWI GGATC 3 cut(s) 146, 749, 762
AcyI GRCGYC 1 cut(s) 265
AfeI AGCGCT 1 cut(s) 774
AfiI CCNNNNNNNGG 2 cut(s) 154, 521
AgsI TTSAA 2 cut(s) 46, 391
AjnI CCWGG 1 cut(s) 601
AluBI AGCT 3 cut(s) 422, 535, 578
AluI AGCT 3 cut(s) 422, 535, 578
Alw26I GTCTC 1 cut(s) 657
AlwI GGATC 3 cut(s) 146, 749, 762
AlwNI CAGNNNCTG 1 cut(s) 458
Aor51HI AGCGCT 1 cut(s) 774
AseI ATTAAT 1 cut(s) 162
AspLEI GCGC 1 cut(s) 775
AspS9I GGNCC 1 cut(s) 599
AsuC2I CCSGG 1 cut(s) 357
AsuHPI GGTGA 1 cut(s) 476
AvaII GGWCC 1 cut(s) 599
BamHI GGATCC 1 cut(s) 754
BccI CCATC 1 cut(s) 224
BciT130I CCWGG 1 cut(s) 603
BciVI GTATCC 1 cut(s) 298
BclI TGATCA 1 cut(s) 529
BcnI CCSGG 1 cut(s) 357
BcoDI GTCTC 1 cut(s) 657
BfaI CTAG 1 cut(s) 579
BfmI CTRYAG 1 cut(s) 372
BfoI RGCGCY 1 cut(s) 776
BfuI GTATCC 1 cut(s) 298
BlpI GCTNAGC 1 cut(s) 567
Bme1390I CCNGG 2 cut(s) 357, 603
Bme18I GGWCC 1 cut(s) 599
BmgT120I GGNCC 1 cut(s) 599
BmiI GGNNCC 2 cut(s) 214, 756
BmrFI CCNGG 2 cut(s) 357, 603
BmsI GCATC 1 cut(s) 569
Bpu1102I GCTNAGC 1 cut(s) 567
BpuMI CCSGG 1 cut(s) 357
BsaBI GATNNNNATC 1 cut(s) 143
BsaHI GRCGYC 1 cut(s) 265
BsaJI CCNNGG 1 cut(s) 334
BsaXI ACNNNNNCTCC 2 cut(s) 529, 559
Bsc4I CCNNNNNNNGG 2 cut(s) 154, 521
Bse3DI GCAATG 1 cut(s) 723
Bse8I GATNNNNATC 1 cut(s) 143
BseBI CCWGG 1 cut(s) 603
BseDI CCNNGG 1 cut(s) 334
BseGI GGATG 1 cut(s) 654
BseJI GATNNNNATC 1 cut(s) 143
BseLI CCNNNNNNNGG 2 cut(s) 154, 521
BseMI GCAATG 1 cut(s) 723
BseMII CTCAG 3 cut(s) 300, 450, 618
BseYI CCCAGC 1 cut(s) 587
BsgI GTGCAG 1 cut(s) 458
BsiSI CCGG 1 cut(s) 357
BslFI GGGAC 1 cut(s) 18
BslI CCNNNNNNNGG 2 cut(s) 154, 521
BsmAI GTCTC 1 cut(s) 657
BsmFI GGGAC 1 cut(s) 18
Bsp143I GATC 4 cut(s) 138, 271, 529, 754
Bsp1720I GCTNAGC 1 cut(s) 567
BspACI CCGC 2 cut(s) 592, 761
BspCNI CTCAG 3 cut(s) 301, 451, 619
BspLI GGNNCC 2 cut(s) 214, 756
BspPI GGATC 3 cut(s) 146, 749, 762
BsrDI GCAATG 1 cut(s) 723
BssECI CCNNGG 1 cut(s) 334
BssMI GATC 4 cut(s) 138, 271, 529, 754
BssNI GRCGYC 1 cut(s) 265
Bst2UI CCWGG 1 cut(s) 603
Bst4CI ACNGT 5 cut(s) 14, 56, 338, 487, 541
Bst6I CTCTTC 1 cut(s) 482
BstACI GRCGYC 1 cut(s) 265
BstC8I GCNNGC 1 cut(s) 173
BstDEI CTNAG 4 cut(s) 309, 459, 567, 627
BstDSI CCRYGG 1 cut(s) 334
BstF5I GGATG 1 cut(s) 654
BstH2I RGCGCY 1 cut(s) 776
BstHHI GCGC 1 cut(s) 775
BstKTI GATC 4 cut(s) 141, 274, 532, 757
BstMAI GTCTC 1 cut(s) 657
BstMBI GATC 4 cut(s) 138, 271, 529, 754
BstMWI GCNNNNNNNGC 1 cut(s) 584
BstNI CCWGG 1 cut(s) 603
BstNSI RCATGY 2 cut(s) 67, 175
BstSCI CCNGG 2 cut(s) 355, 601
BstSFI CTRYAG 1 cut(s) 372
BstX2I RGATCY 1 cut(s) 754
BstYI RGATCY 1 cut(s) 754
BsuI GTATCC 1 cut(s) 298
BtgI CCRYGG 1 cut(s) 334
BtsCI GGATG 1 cut(s) 654
BtsI GCAGTG 1 cut(s) 27
BtsIMutI CAGTG 3 cut(s) 27, 222, 624
Cac8I GCNNGC 1 cut(s) 173
CaiI CAGNNNCTG 1 cut(s) 458
CfoI GCGC 1 cut(s) 775
Cfr13I GGNCC 1 cut(s) 599
CviAII CATG 5 cut(s) 64, 79, 154, 172, 182
CviJI RGCY 4 cut(s) 397, 422, 535, 578
CviKI_1 RGCY 4 cut(s) 397, 422, 535, 578
DdeI CTNAG 4 cut(s) 309, 459, 567, 627
DpnI GATC 4 cut(s) 140, 273, 531, 756
DpnII GATC 4 cut(s) 138, 271, 529, 754
Eam1104I CTCTTC 1 cut(s) 482
EarI CTCTTC 1 cut(s) 482
EciI GGCGGA 1 cut(s) 607
Eco47I GGWCC 1 cut(s) 599
Eco47III AGCGCT 1 cut(s) 774
EcoRII CCWGG 1 cut(s) 601
FaeI CATG 5 cut(s) 67, 82, 157, 175, 185
FaqI GGGAC 1 cut(s) 18
FatI CATG 5 cut(s) 63, 78, 153, 171, 181
FbaI TGATCA 1 cut(s) 529
FokI GGATG 1 cut(s) 661
FspBI CTAG 1 cut(s) 579
GlaI GCGC 1 cut(s) 774
GsaI CCCAGC 1 cut(s) 591
HaeII RGCGCY 1 cut(s) 776
HapII CCGG 1 cut(s) 357
HhaI GCGC 1 cut(s) 775
Hin1I GRCGYC 1 cut(s) 265
Hin1II CATG 5 cut(s) 67, 82, 157, 175, 185
Hin6I GCGC 1 cut(s) 773
HinP1I GCGC 1 cut(s) 773
HincII GTYRAC 1 cut(s) 93
HindII GTYRAC 1 cut(s) 93
HinfI GANTC 5 cut(s) 391, 416, 442, 455, 544
HpaI GTTAAC 1 cut(s) 93
HpaII CCGG 1 cut(s) 357
HphI GGTGA 1 cut(s) 476
Hpy166II GTNNAC 2 cut(s) 25, 93
Hpy188I TCNGA 3 cut(s) 133, 460, 516
Hpy188III TCNNGA 4 cut(s) 269, 481, 668, 676
Hpy8I GTNNAC 2 cut(s) 25, 93
Hpy99I CGWCG 1 cut(s) 267
HpyAV CCTTC 1 cut(s) 774
HpyCH4III ACNGT 5 cut(s) 14, 56, 338, 487, 541
HpyCH4IV ACGT 1 cut(s) 265
HpyCH4V TGCA 4 cut(s) 175, 439, 494, 635
HpyF10VI GCNNNNNNNGC 1 cut(s) 584
HpyF3I CTNAG 4 cut(s) 309, 459, 567, 627
HpySE526I ACGT 1 cut(s) 265
Hsp92I GRCGYC 1 cut(s) 265
Hsp92II CATG 5 cut(s) 67, 82, 157, 175, 185
HspAI GCGC 1 cut(s) 773
Ksp22I TGATCA 1 cut(s) 529
KspAI GTTAAC 1 cut(s) 93
Kzo9I GATC 4 cut(s) 138, 271, 529, 754
LweI GCATC 1 cut(s) 569
MaeI CTAG 1 cut(s) 579
MaeII ACGT 1 cut(s) 265
MaeIII GTNAC 3 cut(s) 286, 464, 541
MalI GATC 4 cut(s) 140, 273, 531, 756
MboI GATC 4 cut(s) 138, 271, 529, 754
MboII GAAGA 5 cut(s) 104, 266, 322, 469, 529
MflI RGATCY 1 cut(s) 754
MluCI AATT 4 cut(s) 96, 159, 377, 549
MlyI GAGTC 1 cut(s) 538
MnlI CCTC 7 cut(s) 10, 126, 191, 196, 454, 622, 724
MseI TTAA 5 cut(s) 92, 162, 258, 428, 639
MslI CAYNNNNRTG 3 cut(s) 83, 186, 704
MspA1I CMGCKG 1 cut(s) 535
MspI CCGG 1 cut(s) 357
MspR9I CCNGG 2 cut(s) 357, 603
MvaI CCWGG 1 cut(s) 603
MwoI GCNNNNNNNGC 1 cut(s) 584
NciI CCSGG 1 cut(s) 357
NdeII GATC 4 cut(s) 138, 271, 529, 754
NlaIII CATG 5 cut(s) 67, 82, 157, 175, 185
NlaIV GGNNCC 2 cut(s) 214, 756
NmuCI GTSAC 3 cut(s) 286, 464, 541
NspI RCATGY 2 cut(s) 67, 175
PaeI GCATGC 1 cut(s) 175
PfeI GAWTC 4 cut(s) 391, 416, 442, 455
PleI GAGTC 1 cut(s) 538
PpsI GAGTC 1 cut(s) 538
PshBI ATTAAT 1 cut(s) 162
Psp6I CCWGG 1 cut(s) 601
PspFI CCCAGC 1 cut(s) 587
PspGI CCWGG 1 cut(s) 601
PspN4I GGNNCC 2 cut(s) 214, 756
PspPI GGNCC 1 cut(s) 599
PstNI CAGNNNCTG 1 cut(s) 458
PsuI RGATCY 1 cut(s) 754
PvuII CAGCTG 1 cut(s) 535
RseI CAYNNNNRTG 3 cut(s) 83, 186, 704
SaqAI TTAA 5 cut(s) 92, 162, 258, 428, 639
Sau3AI GATC 4 cut(s) 138, 271, 529, 754
Sau96I GGNCC 1 cut(s) 599
SchI GAGTC 1 cut(s) 538
ScrFI CCNGG 2 cut(s) 357, 603
SetI ASST 8 cut(s) 129, 268, 424, 537, 580, 621, 633, 735
SfaNI GCATC 1 cut(s) 569
SfcI CTRYAG 1 cut(s) 372
SinI GGWCC 1 cut(s) 599
SmiMI CAYNNNNRTG 3 cut(s) 83, 186, 704
SphI GCATGC 1 cut(s) 175
Sse9I AATT 4 cut(s) 96, 159, 377, 549
SsiI CCGC 2 cut(s) 592, 761
SspMI CTAG 1 cut(s) 579
StyD4I CCNGG 2 cut(s) 355, 601
TaaI ACNGT 5 cut(s) 14, 56, 338, 487, 541
TaiI ACGT 1 cut(s) 268
TaqI TCGA 1 cut(s) 744
TasI AATT 4 cut(s) 96, 159, 377, 549
TfiI GAWTC 4 cut(s) 391, 416, 442, 455
Tru1I TTAA 5 cut(s) 92, 162, 258, 428, 639
Tru9I TTAA 5 cut(s) 92, 162, 258, 428, 639
TscAI CASTG 3 cut(s) 27, 229, 631
TseFI GTSAC 3 cut(s) 286, 464, 541
Tsp45I GTSAC 3 cut(s) 286, 464, 541
TspDTI ATGAA 1 cut(s) 725
TspGWI ACGGA 1 cut(s) 22
TspRI CASTG 3 cut(s) 27, 229, 631
VpaK11BI GGWCC 1 cut(s) 599
VspI ATTAAT 1 cut(s) 162
XceI RCATGY 2 cut(s) 67, 175
XspI CTAG 1 cut(s) 579
ZraI GACGTC 1 cut(s) 266
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.