Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0009193

Physical Location & Seq

Genomic Coordinates Forward (+)

72598938 .. 72605680

Gene Structure 6743 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00051820.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 750 bp

ATGGCTGCGGTTGCTGAGATTGCCGGTGAGGCAGCCTCTGCCAACAACCAGAACTTGGATTCAATATCAAAACCCGTATCTGAATCGAAACCCAAATCGGAATTCGATGTGCAGAAGCTGGTGGATATGTTCACCAAGTTGAACCCTTTAGCCAAAGAGTTCTTCCCTTCATCTTACTCACCTCTGCAAAATCACAATTTTGATAACTCTTTTGCTGTCAATAACAATAAGCTCTCGCCCACTGACAATCAGGCCAACAATCGAAGGGTTACCGAAGAGCGTCTTGCTGCCATATTTAGTAATTGTGGACAAGTTGTTGACTGCCGAATTTGTGGTGATCCGCATTCAGTGCTCCGTTTTGCATTTGTGGAGTTTGCTGATGAGCATGGTGCAAGAGCAGCCTTGAACCTTGGTGGGACGATGCTAGGGTATTATCCCGTTAGGGTCTTACCTTCAAAAACTGCCATCCTTCCTGTGAATCCTACATTCCTCCCTAGGTCAGAAGATGAACGGGAAATGTGTAGCAGGACTGTATATTGTACAAATATCGATAAGAAGGTTTCTCAAGCTGAAGTCAAGAGTTTCTTTGAAACAGCTTGTGGTGAGGTTACTCGTTTGAGGCTTTTGGGAGATCATGTGCATTCAACCCGTATAGCTTTTGTTGAATTTGCAATGGCAGAAAGTGCCATACTTGCACTGAACTGTAGCGGAATGGTGTTGGGAACACAACCCATCAGGTGTGGTCTCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0016604 GO:0016607 GO:0031974 GO:0031981 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0070013

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PAM2 RRM_1

Protein Analysis

249

Amino Acids

27.33

Weight (kDa)

5.99

Isoelectric Point (pI)

40.16

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	89 - 143	2e-10	RNA recognition motif
RRM_1	PF00076	178 - 245	5e-09	RNA recognition motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0009193)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G53650 AT1G53650 AT3G14450
fragaria_vesca	FvH4_3g16680 FvH4_3g16680
malus_domestica	MD05G1208300.v1.1 MD10G1194800.v1.1
prunus_persica	Prupe.4G149200_v2.0.a1 Prupe.4G149200_v2.0.a1
pyrus_communis	pycom05g19400 pycom10g16820
rosa_chinensis	RchiOBHm_Chr5g0027791
rosa_laevigata	RLG00000033043
rosa_multiflora	Rmu_sc0000920.1_g000007
rosa_roxburghii	Rroxscaffold_1G00051820
rosa_rugosa	Rorug05G0101100 Rorug05G0101200
rosa_samantha	Rh5AG195400 Rh5BG193700 Rh5CG214000 Rh5DG195700
rosa_wichuraiana	Rw5G017830

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	55
AciI	CCGC	3 cut(s)	8, 341, 708
AclWI	GGATC	1 cut(s)	332
AcsI	RAATTY	3 cut(s)	101, 327, 665
AcuI	CTGAAG	1 cut(s)	591
AfaI	GTAC	1 cut(s)	541
AfiI	CCNNNNNNNGG	1 cut(s)	55
AgsI	TTSAA	7 cut(s)	63, 142, 406, 456, 590, 645, 665
AjuI	GAANNNNNNNTTGG	4 cut(s)	86, 118, 146, 178
AluBI	AGCT	5 cut(s)	118, 232, 569, 596, 656
AluI	AGCT	5 cut(s)	118, 232, 569, 596, 656
Alw21I	GWGCWC	1 cut(s)	354
AlwI	GGATC	1 cut(s)	332
AlwNI	CAGNNNCTG	2 cut(s)	38, 118
AoxI	GGCC	1 cut(s)	252
ApeKI	GCWGC	4 cut(s)	5, 32, 287, 398
ApoI	RAATTY	3 cut(s)	101, 327, 665
AspA2I	CCTAGG	1 cut(s)	494
AsuHPI	GGTGA	5 cut(s)	38, 124, 171, 347, 614
AvrII	CCTAGG	1 cut(s)	494
Bbv12I	GWGCWC	1 cut(s)	354
BbvI	GCAGC	3 cut(s)	44, 274, 410
BccI	CCATC	2 cut(s)	473, 740
BfaI	CTAG	2 cut(s)	425, 495
BfmI	CTRYAG	1 cut(s)	703
BglI	GCCNNNNNGGC	1 cut(s)	29
BisI	GCNGC	4 cut(s)	6, 33, 288, 399
BlnI	CCTAGG	1 cut(s)	494
BlsI	GCNGC	4 cut(s)	7, 34, 289, 400
BmsI	GCATC	1 cut(s)	411
BplI	GAGNNNNNCTC	2 cut(s)	20, 52
BpuEI	CTTGAG	1 cut(s)	549
Bsa29I	ATCGAT	1 cut(s)	549
BsaJI	CCNNGG	2 cut(s)	409, 494
BsaXI	ACNNNNNCTCC	2 cut(s)	621, 651
Bsc4I	CCNNNNNNNGG	1 cut(s)	55
Bse118I	RCCGGY	1 cut(s)	23
Bse3DI	GCAATG	1 cut(s)	678
BseCI	ATCGAT	1 cut(s)	549
BseDI	CCNNGG	2 cut(s)	409, 494
BseGI	GGATG	1 cut(s)	465
BseLI	CCNNNNNNNGG	1 cut(s)	55
BseMI	GCAATG	1 cut(s)	678
BseMII	CTCAG	1 cut(s)	6
BseXI	GCAGC	3 cut(s)	44, 274, 410
BsgI	GTGCAG	1 cut(s)	131
BshFI	GGCC	1 cut(s)	254
BshVI	ATCGAT	1 cut(s)	549
BsiHKAI	GWGCWC	1 cut(s)	354
BsiSI	CCGG	1 cut(s)	24
BslFI	GGGAC	1 cut(s)	430
BslI	CCNNNNNNNGG	1 cut(s)	55
BsmFI	GGGAC	1 cut(s)	430
BsmI	GAATGC	2 cut(s)	343, 640
BsnI	GGCC	1 cut(s)	254
Bsp1286I	GDGCHC	1 cut(s)	354
Bsp1407I	TGTACA	1 cut(s)	539
Bsp143I	GATC	2 cut(s)	337, 631
BspACI	CCGC	3 cut(s)	8, 341, 708
BspANI	GGCC	1 cut(s)	254
BspCNI	CTCAG	1 cut(s)	7
BspDI	ATCGAT	1 cut(s)	549
BspPI	GGATC	1 cut(s)	332
BspQI	GCTCTTC	1 cut(s)	270
BsrDI	GCAATG	1 cut(s)	678
BsrFI	RCCGGY	1 cut(s)	23
BsrGI	TGTACA	1 cut(s)	539
BssAI	RCCGGY	1 cut(s)	23
BssECI	CCNNGG	2 cut(s)	409, 494
BssMI	GATC	2 cut(s)	337, 631
BssT1I	CCWWGG	2 cut(s)	409, 494
Bst4CI	ACNGT	2 cut(s)	532, 704
Bst6I	CTCTTC	1 cut(s)	270
BstAPI	GCANNNNNTGC	3 cut(s)	38, 349, 683
BstAUI	TGTACA	1 cut(s)	539
BstDEI	CTNAG	1 cut(s)	15
BstEII	GGTNACC	1 cut(s)	268
BstF5I	GGATG	1 cut(s)	465
BstKTI	GATC	2 cut(s)	340, 634
BstMBI	GATC	2 cut(s)	337, 631
BstMWI	GCNNNNNNNGC	8 cut(s)	11, 20, 29, 38, 349, 398, 683, 692
BstPI	GGTNACC	1 cut(s)	268
BstSFI	CTRYAG	1 cut(s)	703
BstV1I	GCAGC	3 cut(s)	44, 274, 410
Bsu15I	ATCGAT	1 cut(s)	549
BsuRI	GGCC	1 cut(s)	254
BsuTUI	ATCGAT	1 cut(s)	549
BtsCI	GGATG	1 cut(s)	465
BtsIMutI	CAGTG	3 cut(s)	240, 354, 695
CaiI	CAGNNNCTG	2 cut(s)	38, 118
Cfr10I	RCCGGY	1 cut(s)	23
ClaI	ATCGAT	1 cut(s)	549
CseI	GACGC	1 cut(s)	269
Csp6I	GTAC	1 cut(s)	540
CviAII	CATG	2 cut(s)	386, 635
CviQI	GTAC	1 cut(s)	540
DdeI	CTNAG	1 cut(s)	15
DpnI	GATC	2 cut(s)	339, 633
DpnII	GATC	2 cut(s)	337, 631
Eam1104I	CTCTTC	1 cut(s)	270
EarI	CTCTTC	1 cut(s)	270
Eco130I	CCWWGG	2 cut(s)	409, 494
Eco57I	CTGAAG	1 cut(s)	591
Eco91I	GGTNACC	1 cut(s)	268
EcoO65I	GGTNACC	1 cut(s)	268
EcoRI	GAATTC	1 cut(s)	101
EcoT14I	CCWWGG	2 cut(s)	409, 494
ErhI	CCWWGG	2 cut(s)	409, 494
FaeI	CATG	2 cut(s)	389, 638
FaiI	YATR	7 cut(s)	128, 293, 387, 535, 636, 653, 689
FalI	AAGNNNNNCTT	4 cut(s)	267, 299, 569, 601
FaqI	GGGAC	1 cut(s)	430
FatI	CATG	2 cut(s)	385, 634
Fnu4HI	GCNGC	4 cut(s)	6, 33, 288, 399
FokI	GGATG	1 cut(s)	452
Fsp4HI	GCNGC	4 cut(s)	6, 33, 288, 399
FspBI	CTAG	2 cut(s)	425, 495
GluI	GCNGC	4 cut(s)	6, 33, 288, 399
HaeIII	GGCC	1 cut(s)	254
HapII	CCGG	1 cut(s)	24
HgaI	GACGC	1 cut(s)	269
Hin1II	CATG	2 cut(s)	389, 638
HincII	GTYRAC	1 cut(s)	319
HindII	GTYRAC	1 cut(s)	319
HinfI	GANTC	3 cut(s)	59, 83, 478
HpaII	CCGG	1 cut(s)	24
HphI	GGTGA	5 cut(s)	38, 124, 171, 347, 614
Hpy166II	GTNNAC	3 cut(s)	132, 308, 319
Hpy188I	TCNGA	3 cut(s)	82, 100, 502
Hpy188III	TCNNGA	1 cut(s)	577
Hpy8I	GTNNAC	3 cut(s)	132, 308, 319
HpyAV	CCTTC	5 cut(s)	177, 258, 462, 479, 550
HpyCH4III	ACNGT	2 cut(s)	532, 704
HpyCH4V	TGCA	7 cut(s)	112, 187, 362, 392, 640, 671, 695
HpyF10VI	GCNNNNNNNGC	8 cut(s)	11, 20, 29, 38, 349, 398, 683, 692
HpyF3I	CTNAG	1 cut(s)	15
Hsp92II	CATG	2 cut(s)	389, 638
Kzo9I	GATC	2 cut(s)	337, 631
LguI	GCTCTTC	1 cut(s)	270
LmnI	GCTCC	1 cut(s)	357
LpnPI	CCDG	7 cut(s)	37, 62, 104, 236, 486, 511, 721
Lsp1109I	GCAGC	3 cut(s)	44, 274, 410
LweI	GCATC	1 cut(s)	411
MaeI	CTAG	2 cut(s)	425, 495
MaeIII	GTNAC	2 cut(s)	268, 607
MalI	GATC	2 cut(s)	339, 633
MboI	GATC	2 cut(s)	337, 631
MboII	GAAGA	3 cut(s)	154, 287, 515
MhlI	GDGCHC	1 cut(s)	354
MluCI	AATT	5 cut(s)	101, 196, 301, 327, 665
MnlI	CCTC	6 cut(s)	22, 46, 192, 500, 598, 612
MspI	CCGG	1 cut(s)	24
Mva1269I	GAATGC	2 cut(s)	343, 640
MwoI	GCNNNNNNNGC	8 cut(s)	11, 20, 29, 38, 349, 398, 683, 692
NdeII	GATC	2 cut(s)	337, 631
NlaIII	CATG	2 cut(s)	389, 638
PciSI	GCTCTTC	1 cut(s)	270
PctI	GAATGC	2 cut(s)	343, 640
PfeI	GAWTC	3 cut(s)	59, 83, 478
PflMI	CCANNNNNTGG	1 cut(s)	55
PkrI	GCNGC	4 cut(s)	7, 34, 289, 400
PspEI	GGTNACC	1 cut(s)	268
PstNI	CAGNNNCTG	2 cut(s)	38, 118
RsaI	GTAC	1 cut(s)	541
RsaNI	GTAC	1 cut(s)	540
SapI	GCTCTTC	1 cut(s)	270
SatI	GCNGC	4 cut(s)	6, 33, 288, 399
Sau3AI	GATC	2 cut(s)	337, 631
SduI	GDGCHC	1 cut(s)	354
SfaNI	GCATC	1 cut(s)	411
SfcI	CTRYAG	1 cut(s)	703
SmlI	CTYRAG	1 cut(s)	564
SmoI	CTYRAG	1 cut(s)	564
Sse9I	AATT	5 cut(s)	101, 196, 301, 327, 665
SsiI	CCGC	3 cut(s)	8, 341, 708
SspMI	CTAG	2 cut(s)	425, 495
StyI	CCWWGG	2 cut(s)	409, 494
TaaI	ACNGT	2 cut(s)	532, 704
TaqI	TCGA	4 cut(s)	86, 105, 262, 549
TasI	AATT	5 cut(s)	101, 196, 301, 327, 665
TatI	WGTACW	1 cut(s)	539
TfiI	GAWTC	3 cut(s)	59, 83, 478
TscAI	CASTG	3 cut(s)	247, 354, 702
TseI	GCWGC	4 cut(s)	5, 32, 287, 398
TspDTI	ATGAA	2 cut(s)	159, 522
TspGWI	ACGGA	1 cut(s)	344
TspRI	CASTG	3 cut(s)	247, 354, 702
Van91I	CCANNNNNTGG	1 cut(s)	55
XapI	RAATTY	3 cut(s)	101, 327, 665
XmaJI	CCTAGG	1 cut(s)	494
XspI	CTAG	2 cut(s)	425, 495

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