Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0017335

Physical Location & Seq

Genomic Coordinates Forward (+)

22542459 .. 22543364

Gene Structure 906 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00400450.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 906 bp

ATGGCTTCTTCTCGCCGCATTTTCGTTGGGAACATCCCTTATGATGCCACCGAGCAACAGGTCAAGGCTCTCTGCGAGGAGGTTGGCCCTGTTGTGACTTTCAGAATGGTTACAGATAAAGACTCCGGGAAGCCAAAGGGTTTTGGGTTCTGTGAGTACAGGGATGAAGTGACGGCGTTTAGTGCGCTGCGGAATCTTCAGGATTGTGAGCTCAATGGCCGGCGTTTGAAGGTTAATTTTGCTGCTAATGAGAAGGCCAATCATCAGCCGATTGGTCTCCAAGCAGCTGTTGATGCAGCCGCCGCAATGGCGGGAGCTCTAGGTGGTTCTCAGCAGCAGCAGGCATTGGCTAATGATCCTTTGACAGTCCATCTGTCCAAAATGTCGAGGAATCAGTTGGCGCAAATGGTCTCGGAGATGAAGGGAATTGCTGTGGAAAATAAGGAGATGGCTCAGGAGCTATTGCTTGCAAAGCCGCAGTTAAACAGGGCTCTGCTTCAGGCACAAATGATGCTAGGAATGGTCACACCACAAATGTTGGGACAGGTTAATATGAGGCCAATGCCTCCCTTCAATAATGGCCAGCCGCAGCAGCAGCTGCTCGTTCCAAAATCGGAACCAGTACAGATCTCGGAGCCTCAGACTCTGGTCACCCCACAAATGATGCAAAAGAGGCCAATGCCTCCATTGAATATGGGCCAGCAGCAGCAACTTCCAAAATCAGAACCAGTGCAAATCTCTGAGCCTCAGATTCTTCCACCGGGTGTGGACCCTGCTTTATTGCAACAAGTTTTGAGCCTACCTCCTGAAACGGTGGCTTCATTGGCACCGGAACTGCGACAACAAGTCATTCAACTCCAGCAGATGTATAGGCAAGATCAGAGGATCCCTTACAGCAGTGGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005847 GO:0005849 GO:0006139 GO:0006379 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0016604 GO:0031123 GO:0031124 GO:0031974 GO:0031981 GO:0032991 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0046483 GO:0070013 GO:0071704 GO:0071920 GO:0090304 GO:0090305 GO:0090501 GO:0097159 GO:0098787 GO:0098789 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko03015 map03015

Pfam Domains

Protein Families

CSTF2_hinge CSTF_C RRM_1

Protein Analysis

301

Amino Acids

33.18

Weight (kDa)

7.69

Isoelectric Point (pI)

62.33

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	7 - 77	2.4e-19	RNA recognition motif
CSTF2_hinge	PF14327	112 - 183	3.5e-14	Hinge domain of cleavage stimulation factor subunit 2
CSTF_C	PF14304	259 - 292	2.1e-07	Transcription termination and cleavage factor C-terminal

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

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Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0017335)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g22940 FvH4_6g23390
rosa_chinensis	RchiOBHm_Chr3g0481441
rosa_laevigata	RLG00000023400
rosa_multiflora	Rmu_sc0000064.1_g000026 Rmu_sc0021886.1_g000005
rosa_roxburghii	Rroxscaffold_6G00400450
rosa_rugosa	Rorug03G0191800
rosa_samantha	Rh3AG242700 Rh3BG277700 Rh3CG272700 Rh3DG269700
rosa_wichuraiana	Rw3G021690

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	826
AciI	CCGC	7 cut(s)	16, 190, 300, 303, 311, 476, 587
AclWI	GGATC	3 cut(s)	350, 880, 893
AcoI	YGGCCR	2 cut(s)	217, 580
AcuI	CTGAAG	2 cut(s)	182, 482
AdeI	CACNNNGTG	1 cut(s)	764
AfaI	GTAC	2 cut(s)	158, 624
AgsI	TTSAA	4 cut(s)	229, 574, 691, 854
AhdI	GACNNNNNGTC	1 cut(s)	845
AluBI	AGCT	5 cut(s)	211, 287, 317, 460, 598
AluI	AGCT	5 cut(s)	211, 287, 317, 460, 598
Alw21I	GWGCWC	2 cut(s)	213, 319
Alw26I	GTCTC	2 cut(s)	281, 415
AlwI	GGATC	3 cut(s)	350, 880, 893
AlwNI	CAGNNNCTG	2 cut(s)	598, 646
AoxI	GGCC	7 cut(s)	85, 217, 255, 557, 580, 674, 697
AspLEI	GCGC	2 cut(s)	187, 403
AspS9I	GGNCC	3 cut(s)	86, 697, 769
AsuC2I	CCSGG	2 cut(s)	127, 762
AsuHPI	GGTGA	1 cut(s)	643
AvaII	GGWCC	1 cut(s)	769
BalI	TGGCCA	1 cut(s)	582
BamHI	GGATCC	1 cut(s)	885
BanI	GGYRCC	1 cut(s)	826
BanII	GRGCYC	3 cut(s)	213, 319, 493
Bbv12I	GWGCWC	2 cut(s)	213, 319
BccI	CCATC	2 cut(s)	378, 442
BceAI	ACGGC	1 cut(s)	189
BcnI	CCSGG	2 cut(s)	127, 762
BcoDI	GTCTC	2 cut(s)	281, 415
BfaI	CTAG	2 cut(s)	320, 515
BglI	GCCNNNNNGGC	1 cut(s)	308
BglII	AGATCT	1 cut(s)	627
Bme1390I	CCNGG	2 cut(s)	127, 762
Bme18I	GGWCC	1 cut(s)	769
BmeRI	GACNNNNNGTC	1 cut(s)	845
BmgT120I	GGNCC	3 cut(s)	86, 697, 769
BmiI	GGNNCC	5 cut(s)	618, 636, 771, 828, 887
BmrFI	CCNGG	2 cut(s)	127, 762
BmsI	GCATC	4 cut(s)	34, 283, 501, 654
BoxI	GACNNNNGTC	1 cut(s)	647
BplI	GAGNNNNNCTC	2 cut(s)	787, 819
BpmI	CTGGAG	1 cut(s)	842
Bpu10I	CCTNAGC	1 cut(s)	453
BpuMI	CCSGG	2 cut(s)	127, 762
BsaI	GGTCTC	2 cut(s)	281, 415
BsaWI	WCCGGW	1 cut(s)	829
Bse118I	RCCGGY	1 cut(s)	219
Bse1I	ACTGG	2 cut(s)	620, 728
Bse3DI	GCAATG	1 cut(s)	312
BseGI	GGATG	2 cut(s)	33, 169
BseMI	GCAATG	1 cut(s)	312
BseMII	CTCAG	5 cut(s)	344, 467, 653, 732, 761
BseNI	ACTGG	2 cut(s)	620, 728
BseRI	GAGGAG	1 cut(s)	92
BshFI	GGCC	7 cut(s)	87, 219, 257, 559, 582, 676, 699
BshNI	GGYRCC	1 cut(s)	826
BsiHKAI	GWGCWC	2 cut(s)	213, 319
BsiSI	CCGG	4 cut(s)	126, 220, 761, 830
BslFI	GGGAC	1 cut(s)	555
BsmAI	GTCTC	2 cut(s)	281, 415
BsmFI	GGGAC	1 cut(s)	555
BsnI	GGCC	7 cut(s)	87, 219, 257, 559, 582, 676, 699
Bso31I	GGTCTC	2 cut(s)	281, 415
Bsp1286I	GDGCHC	3 cut(s)	213, 319, 493
Bsp143I	GATC	4 cut(s)	355, 627, 877, 885
BspACI	CCGC	7 cut(s)	16, 190, 300, 303, 311, 476, 587
BspANI	GGCC	7 cut(s)	87, 219, 257, 559, 582, 676, 699
BspCNI	CTCAG	5 cut(s)	343, 466, 652, 733, 760
BspLI	GGNNCC	5 cut(s)	618, 636, 771, 828, 887
BspPI	GGATC	3 cut(s)	350, 880, 893
BspT107I	GGYRCC	1 cut(s)	826
BspTNI	GGTCTC	2 cut(s)	281, 415
BsrDI	GCAATG	1 cut(s)	312
BsrFI	RCCGGY	1 cut(s)	219
BsrI	ACTGG	2 cut(s)	620, 728
BssAI	RCCGGY	1 cut(s)	219
BssMI	GATC	4 cut(s)	355, 627, 877, 885
Bst4CI	ACNGT	2 cut(s)	367, 814
BstAPI	GCANNNNNTGC	1 cut(s)	598
BstC8I	GCNNGC	5 cut(s)	221, 342, 468, 584, 701
BstDEI	CTNAG	5 cut(s)	330, 453, 639, 741, 747
BstEII	GGTNACC	1 cut(s)	649
BstF5I	GGATG	2 cut(s)	33, 169
BstHHI	GCGC	2 cut(s)	187, 403
BstKTI	GATC	4 cut(s)	358, 630, 880, 888
BstMAI	GTCTC	2 cut(s)	281, 415
BstMBI	GATC	4 cut(s)	355, 627, 877, 885
BstPAI	GACNNNNGTC	1 cut(s)	647
BstPI	GGTNACC	1 cut(s)	649
BstSCI	CCNGG	2 cut(s)	125, 760
BstX2I	RGATCY	2 cut(s)	627, 885
BstYI	RGATCY	2 cut(s)	627, 885
BsuRI	GGCC	7 cut(s)	87, 219, 257, 559, 582, 676, 699
BtsCI	GGATG	2 cut(s)	33, 169
BtsI	GCAGTG	1 cut(s)	904
BtsIMutI	CAGTG	2 cut(s)	735, 904
Cac8I	GCNNGC	5 cut(s)	221, 342, 468, 584, 701
CaiI	CAGNNNCTG	2 cut(s)	598, 646
CfoI	GCGC	2 cut(s)	187, 403
Cfr10I	RCCGGY	1 cut(s)	219
Cfr13I	GGNCC	3 cut(s)	86, 697, 769
Csp6I	GTAC	2 cut(s)	157, 623
CspCI	CAANNNNNGTGG	2 cut(s)	519, 554
CviQI	GTAC	2 cut(s)	157, 623
DdeI	CTNAG	5 cut(s)	330, 453, 639, 741, 747
DpnI	GATC	4 cut(s)	357, 629, 879, 887
DpnII	GATC	4 cut(s)	355, 627, 877, 885
DraIII	CACNNNGTG	1 cut(s)	764
DriI	GACNNNNNGTC	1 cut(s)	845
EaeI	YGGCCR	2 cut(s)	217, 580
Eam1105I	GACNNNNNGTC	1 cut(s)	845
Ecl136II	GAGCTC	2 cut(s)	211, 317
Eco24I	GRGCYC	3 cut(s)	213, 319, 493
Eco31I	GGTCTC	2 cut(s)	281, 415
Eco47I	GGWCC	1 cut(s)	769
Eco53kI	GAGCTC	2 cut(s)	211, 317
Eco57I	CTGAAG	2 cut(s)	182, 482
Eco91I	GGTNACC	1 cut(s)	649
EcoICRI	GAGCTC	2 cut(s)	211, 317
EcoO65I	GGTNACC	1 cut(s)	649
EcoT38I	GRGCYC	3 cut(s)	213, 319, 493
FaiI	YATR	4 cut(s)	42, 554, 695, 870
FaqI	GGGAC	1 cut(s)	555
FauI	CCCGC	1 cut(s)	304
FokI	GGATG	2 cut(s)	20, 176
FriOI	GRGCYC	3 cut(s)	213, 319, 493
FspBI	CTAG	2 cut(s)	320, 515
GlaI	GCGC	2 cut(s)	186, 402
GsuI	CTGGAG	1 cut(s)	842
HaeIII	GGCC	7 cut(s)	87, 219, 257, 559, 582, 676, 699
HapII	CCGG	4 cut(s)	126, 220, 761, 830
HhaI	GCGC	2 cut(s)	187, 403
Hin6I	GCGC	2 cut(s)	185, 401
HinP1I	GCGC	2 cut(s)	185, 401
HinfI	GANTC	5 cut(s)	122, 193, 391, 643, 751
HpaII	CCGG	4 cut(s)	126, 220, 761, 830
HphI	GGTGA	1 cut(s)	643
Hpy166II	GTNNAC	1 cut(s)	769
Hpy188I	TCNGA	9 cut(s)	104, 415, 616, 634, 642, 724, 742, 750, 882
Hpy188III	TCNNGA	3 cut(s)	200, 455, 806
Hpy8I	GTNNAC	1 cut(s)	769
HpyAV	CCTTC	4 cut(s)	223, 247, 415, 580
HpyCH4III	ACNGT	2 cut(s)	367, 814
HpyCH4V	TGCA	5 cut(s)	296, 470, 667, 733, 784
HpyF3I	CTNAG	5 cut(s)	330, 453, 639, 741, 747
HspAI	GCGC	2 cut(s)	185, 401
KroI	GCCGGC	1 cut(s)	219
KroNI	GCCGGC	1 cut(s)	221
Kzo9I	GATC	4 cut(s)	355, 627, 877, 885
LmnI	GCTCC	3 cut(s)	314, 457, 634
LweI	GCATC	4 cut(s)	34, 283, 501, 654
MaeI	CTAG	2 cut(s)	320, 515
MaeIII	GTNAC	5 cut(s)	94, 109, 169, 523, 649
MalI	GATC	4 cut(s)	357, 629, 879, 887
MboI	GATC	4 cut(s)	355, 627, 877, 885
MboII	GAAGA	2 cut(s)	188, 746
MflI	RGATCY	2 cut(s)	627, 885
MhlI	GDGCHC	3 cut(s)	213, 319, 493
MlsI	TGGCCA	1 cut(s)	582
MluCI	AATT	2 cut(s)	235, 426
MluNI	TGGCCA	1 cut(s)	582
MlyI	GAGTC	2 cut(s)	116, 637
Mox20I	TGGCCA	1 cut(s)	582
MroNI	GCCGGC	1 cut(s)	219
MscI	TGGCCA	1 cut(s)	582
MseI	TTAA	3 cut(s)	234, 482, 549
Msp20I	TGGCCA	1 cut(s)	582
MspA1I	CMGCKG	2 cut(s)	287, 598
MspI	CCGG	4 cut(s)	126, 220, 761, 830
MspR9I	CCNGG	2 cut(s)	127, 762
NaeI	GCCGGC	1 cut(s)	221
NciI	CCSGG	2 cut(s)	127, 762
NdeII	GATC	4 cut(s)	355, 627, 877, 885
NgoMIV	GCCGGC	1 cut(s)	219
NlaIV	GGNNCC	5 cut(s)	618, 636, 771, 828, 887
NmuCI	GTSAC	4 cut(s)	94, 169, 523, 649
PdiI	GCCGGC	1 cut(s)	221
PfeI	GAWTC	3 cut(s)	193, 391, 751
PfoI	TCCNGGA	1 cut(s)	125
PleI	GAGTC	2 cut(s)	116, 637
PpsI	GAGTC	2 cut(s)	116, 637
PshAI	GACNNNNGTC	1 cut(s)	647
Psp124BI	GAGCTC	2 cut(s)	213, 319
PspEI	GGTNACC	1 cut(s)	649
PspN4I	GGNNCC	5 cut(s)	618, 636, 771, 828, 887
PspPI	GGNCC	3 cut(s)	86, 697, 769
PstNI	CAGNNNCTG	2 cut(s)	598, 646
PsuI	RGATCY	2 cut(s)	627, 885
PvuII	CAGCTG	2 cut(s)	287, 598
RsaI	GTAC	2 cut(s)	158, 624
RsaNI	GTAC	2 cut(s)	157, 623
SacI	GAGCTC	2 cut(s)	213, 319
SaqAI	TTAA	3 cut(s)	234, 482, 549
Sau3AI	GATC	4 cut(s)	355, 627, 877, 885
Sau96I	GGNCC	3 cut(s)	86, 697, 769
SchI	GAGTC	2 cut(s)	116, 637
ScrFI	CCNGG	2 cut(s)	127, 762
SduI	GDGCHC	3 cut(s)	213, 319, 493
SfaNI	GCATC	4 cut(s)	34, 283, 501, 654
SinI	GGWCC	1 cut(s)	769
Sse9I	AATT	2 cut(s)	235, 426
SsiI	CCGC	7 cut(s)	16, 190, 300, 303, 311, 476, 587
SspMI	CTAG	2 cut(s)	320, 515
SstI	GAGCTC	2 cut(s)	213, 319
StyD4I	CCNGG	2 cut(s)	125, 760
TaaI	ACNGT	2 cut(s)	367, 814
TaqI	TCGA	1 cut(s)	386
TasI	AATT	2 cut(s)	235, 426
TatI	WGTACW	2 cut(s)	156, 622
TauI	GCSGC	5 cut(s)	18, 302, 305, 478, 589
TfiI	GAWTC	3 cut(s)	193, 391, 751
Tru1I	TTAA	3 cut(s)	234, 482, 549
Tru9I	TTAA	3 cut(s)	234, 482, 549
TscAI	CASTG	2 cut(s)	735, 904
TseFI	GTSAC	4 cut(s)	94, 169, 523, 649
Tsp45I	GTSAC	4 cut(s)	94, 169, 523, 649
TspDTI	ATGAA	3 cut(s)	180, 434, 810
TspRI	CASTG	2 cut(s)	735, 904
VpaK11BI	GGWCC	1 cut(s)	769
XspI	CTAG	2 cut(s)	320, 515

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.