Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0001809

Physical Location & Seq

Genomic Coordinates Forward (+)

39955572 .. 39959198

Gene Structure 3627 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG204100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1008 bp

ATGGCGACCATGAACCCGTTTGATTTGTTGGGCGACGATGATGCCGAGGACCCTTCGCTGCTGGTCGCGGCTCACCAACAGAAGCTCGCTGCCGCACCCAAGAAAGCTCAGGCTCAGCCCAACAAGCCCGGTCTCGACGCCAAGCCCGCCAAGTTGCCTTCCAAGCCTGCCCCTCCTTCTCAGGCTGTGAGGGATTCAAAGAATGAAGCTGGTCGTGGAGGCCGTGGGGGTGGACGTGGATTTGGGCGTGGTCGTGGCGGTGGTGGTGGCTACAATCGTGATTCAGCCAATAATGAAAACAGTGGGTACAATCGTGAATCAGCCCCTGCTGGTCAGGGTGCTTTTGAGGATGCACCTCCTAAAAGGCGTTTCTCTGGTGGGGATGGTGATGGAAGGCCATCTGAAAGGCGTGGCTATGGGGGAGATGGAGAAGGAAGGACGACTGAAAGGCGTAGCTATGGTGGACCACGCGGTTCTTACCATGGTGGTCGCCGCGGTGGTTTTGGGAATGGGGAAGTTGGTGATGAGGAGCGCCCACGGAGGACCCATGAACGTCGTAGTGGGACTGGACGCGGAAATGAACTCAAGCGTGAAGGTTCTGGTCGTGGAAACTGGGGATCACAAACTGATGAATTTCCTGAGGTGACTGAAGACGGAGTCAATGCAACTGAAAAAAGTTTGGGCGAAGAAAAGCCTGTGGGAGAGGTAGATGCAGCAGATGACAGCAAAGAGACCCCTGCCAATGAACCTGAAGAAAAGGAACCTGAGGAGAAGGAAATGACACTTGAAGAGTATGAGAAGGTGCTTGAAGAGAAAAGGAAGGCCCTGCAGGCACTTAAGACTGAAGAAAGAAAGGTTGATACTAAGGAATTTGAATCACTGCAACAGCTTTCAAACAAGAAAGGGAATGATGATATCTTCATTAAATTGGTGAGTCTGCTGATCCTTTTGAGATGTCTCTGTCTCCTTGTTCATTGTGTGGACCTGACATCAACCTATTACTTGTAA

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

HABP4_PAI-RBP1 Stm1_N

Protein Analysis

335

Amino Acids

36.26

Weight (kDa)

5.59

Isoelectric Point (pI)

53.52

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Stm1_N	PF09598	1 - 77	3.9e-23	Stm1
HABP4_PAI-RBP1	PF04774	179 - 286	9.6e-27	Hyaluronan / mRNA binding family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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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: OG0001809)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G16830 AT4G16830 AT4G16830
fragaria_vesca	FvH4_5g20020 FvH4_5g20020 FvH4_5g20020 FvH4_7g10280
malus_domestica	MD02G1213500.v1.1 MD04G1050100.v1.1 MD06G1049800.v1.1 MD07G1109500.v1.1
prunus_persica	Prupe.2G132500_v2.0.a1 Prupe.5G060200_v2.0.a1 Prupe.5G060200_v2.0.a1 Prupe.5G060200_v2.0.a1
pyrus_communis	pycom04g04410 pycom06g04220 pycom07g09400 pycom12646g00030
rosa_chinensis	RchiOBHm_Chr1g0348031 RchiOBHm_Chr7g0204831 RchiOBHm_Chr7g0204851
rosa_laevigata	RLG00000003428 RLG00000028697
rosa_multiflora	Rmu_sc0002180.1_g000016 Rmu_sc0002180.1_g000023 Rmu_ssc0000263.1_g000007
rosa_roxburghii	Rroxscaffold_3G00252730 Rroxscaffold_4G00307320
rosa_rugosa	Rorug01G0190700 Rorug01G0190800 Rorug07G0086000 Rorug07G0086000 Rorug07G0086100
rosa_samantha	Rh1AG209300 Rh1BG174300 Rh1CG193700 Rh1DG204100 Rh7AG216500 Rh7AG216700 Rh7BG213600 Rh7CG230000 Rh7DG224100 Rh7DG224300
rosa_wichuraiana	Rw1G017440 Rw7G018760 Rw7G018780

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	4 cut(s)	68, 471, 495, 573
AciI	CCGC	8 cut(s)	68, 93, 147, 258, 471, 493, 495, 573
AclWI	GGATC	2 cut(s)	625, 937
AcsI	RAATTY	2 cut(s)	632, 869
AcuI	CTGAAG	3 cut(s)	669, 771, 864
AcyI	GRCGYC	1 cut(s)	138
AfaI	GTAC	1 cut(s)	308
AflII	CTTAAG	1 cut(s)	836
AgsI	TTSAA	5 cut(s)	198, 788, 809, 875, 894
AjiI	CACGTC	1 cut(s)	236
AluBI	AGCT	5 cut(s)	85, 107, 209, 456, 889
AluI	AGCT	5 cut(s)	85, 107, 209, 456, 889
Alw26I	GTCTC	4 cut(s)	137, 725, 962, 968
AlwI	GGATC	2 cut(s)	625, 937
AlwNI	CAGNNNCTG	1 cut(s)	326
AoxI	GGCC	3 cut(s)	220, 395, 822
ApeKI	GCWGC	3 cut(s)	58, 89, 713
ApoI	RAATTY	2 cut(s)	632, 869
AspLEI	GCGC	1 cut(s)	534
AspS9I	GGNCC	5 cut(s)	49, 464, 543, 823, 982
AsuC2I	CCSGG	1 cut(s)	129
AsuHPI	GGTGA	5 cut(s)	65, 398, 533, 655, 943
AvaII	GGWCC	4 cut(s)	49, 464, 543, 982
AxyI	CCTNAGG	2 cut(s)	639, 765
BaeI	ACNNNNGTAYC	2 cut(s)	298, 331
BbsI	GAAGAC	1 cut(s)	657
BbvI	GCAGC	3 cut(s)	45, 76, 725
BccI	CCATC	4 cut(s)	377, 383, 406, 419
BceAI	ACGGC	1 cut(s)	207
BcgI	CGANNNNNNTGC	2 cut(s)	23, 57
BcnI	CCSGG	1 cut(s)	129
BcoDI	GTCTC	4 cut(s)	137, 725, 962, 968
BfmI	CTRYAG	1 cut(s)	827
BfoI	RGCGCY	1 cut(s)	535
BfrI	CTTAAG	1 cut(s)	836
BglI	GCCNNNNNGGC	1 cut(s)	830
BisI	GCNGC	6 cut(s)	59, 69, 90, 93, 493, 714
BlpI	GCTNAGC	1 cut(s)	114
BlsI	GCNGC	6 cut(s)	60, 70, 91, 94, 494, 715
Bme1390I	CCNGG	1 cut(s)	129
Bme18I	GGWCC	4 cut(s)	49, 464, 543, 982
BmgBI	CACGTC	1 cut(s)	236
BmgT120I	GGNCC	5 cut(s)	49, 464, 543, 823, 982
BmiI	GGNNCC	3 cut(s)	51, 545, 762
BmrFI	CCNGG	1 cut(s)	129
BmrI	ACTGGG	1 cut(s)	622
BmsI	GCATC	3 cut(s)	31, 340, 700
BmuI	ACTGGG	1 cut(s)	622
BpiI	GAAGAC	1 cut(s)	657
Bpu10I	CCTNAGC	1 cut(s)	108
Bpu1102I	GCTNAGC	1 cut(s)	114
BpuEI	CTTGAG	1 cut(s)	569
BpuMI	CCSGG	1 cut(s)	129
BsaHI	GRCGYC	1 cut(s)	138
BsaI	GGTCTC	2 cut(s)	137, 725
BsaJI	CCNNGG	5 cut(s)	45, 223, 481, 493, 536
Bse1I	ACTGG	2 cut(s)	571, 617
Bse21I	CCTNAGG	2 cut(s)	639, 765
BseDI	CCNNGG	5 cut(s)	45, 223, 481, 493, 536
BseGI	GGATG	2 cut(s)	355, 388
BseMII	CTCAG	5 cut(s)	122, 128, 194, 630, 756
BseNI	ACTGG	2 cut(s)	571, 617
BseRI	GAGGAG	2 cut(s)	542, 782
BseXI	GCAGC	3 cut(s)	45, 76, 725
Bsh1236I	CGCG	4 cut(s)	68, 471, 495, 573
BshFI	GGCC	3 cut(s)	222, 397, 824
BsiSI	CCGG	1 cut(s)	129
BslFI	GGGAC	1 cut(s)	577
BsmAI	GTCTC	4 cut(s)	137, 725, 962, 968
BsmFI	GGGAC	1 cut(s)	577
BsnI	GGCC	3 cut(s)	222, 397, 824
Bso31I	GGTCTC	2 cut(s)	137, 725
Bsp143I	GATC	2 cut(s)	617, 942
Bsp1720I	GCTNAGC	1 cut(s)	114
Bsp19I	CCATGG	1 cut(s)	481
BspACI	CCGC	8 cut(s)	68, 93, 147, 258, 471, 493, 495, 573
BspANI	GGCC	3 cut(s)	222, 397, 824
BspCNI	CTCAG	5 cut(s)	121, 127, 193, 631, 757
BspFNI	CGCG	4 cut(s)	68, 471, 495, 573
BspLI	GGNNCC	3 cut(s)	51, 545, 762
BspMAI	CTGCAG	1 cut(s)	831
BspPI	GGATC	2 cut(s)	625, 937
BspTI	CTTAAG	1 cut(s)	836
BspTNI	GGTCTC	2 cut(s)	137, 725
BsrI	ACTGG	2 cut(s)	571, 617
BssECI	CCNNGG	5 cut(s)	45, 223, 481, 493, 536
BssMI	GATC	2 cut(s)	617, 942
BssNI	GRCGYC	1 cut(s)	138
BssT1I	CCWWGG	1 cut(s)	481
Bst4CI	ACNGT	1 cut(s)	302
Bst6I	CTCTTC	2 cut(s)	783, 804
BstACI	GRCGYC	1 cut(s)	138
BstAFI	CTTAAG	1 cut(s)	836
BstC8I	GCNNGC	4 cut(s)	87, 147, 168, 831
BstDEI	CTNAG	6 cut(s)	108, 114, 180, 639, 765, 864
BstDSI	CCRYGG	4 cut(s)	223, 481, 493, 536
BstF5I	GGATG	2 cut(s)	355, 388
BstFNI	CGCG	4 cut(s)	68, 471, 495, 573
BstH2I	RGCGCY	1 cut(s)	535
BstHHI	GCGC	1 cut(s)	534
BstKTI	GATC	2 cut(s)	620, 945
BstMAI	GTCTC	4 cut(s)	137, 725, 962, 968
BstMBI	GATC	2 cut(s)	617, 942
BstMWI	GCNNNNNNNGC	4 cut(s)	124, 146, 163, 830
BstSCI	CCNGG	1 cut(s)	127
BstSFI	CTRYAG	1 cut(s)	827
BstUI	CGCG	4 cut(s)	68, 471, 495, 573
BstV1I	GCAGC	3 cut(s)	45, 76, 725
BstV2I	GAAGAC	1 cut(s)	657
Bsu36I	CCTNAGG	2 cut(s)	639, 765
BsuRI	GGCC	3 cut(s)	222, 397, 824
BtgI	CCRYGG	4 cut(s)	223, 481, 493, 536
BtrI	CACGTC	1 cut(s)	236
BtsCI	GGATG	2 cut(s)	355, 388
BtsI	GCAGTG	1 cut(s)	878
BtsIMutI	CAGTG	2 cut(s)	307, 878
Cac8I	GCNNGC	4 cut(s)	87, 147, 168, 831
CaiI	CAGNNNCTG	1 cut(s)	326
CfoI	GCGC	1 cut(s)	534
Cfr13I	GGNCC	5 cut(s)	49, 464, 543, 823, 982
Cfr42I	CCGCGG	1 cut(s)	496
CseI	GACGC	2 cut(s)	146, 579
Csp6I	GTAC	1 cut(s)	307
CviAII	CATG	3 cut(s)	10, 482, 548
CviQI	GTAC	1 cut(s)	307
DdeI	CTNAG	6 cut(s)	108, 114, 180, 639, 765, 864
DpnI	GATC	2 cut(s)	619, 944
DpnII	GATC	2 cut(s)	617, 942
Eam1104I	CTCTTC	2 cut(s)	783, 804
EarI	CTCTTC	2 cut(s)	783, 804
Eco130I	CCWWGG	1 cut(s)	481
Eco31I	GGTCTC	2 cut(s)	137, 725
Eco32I	GATATC	1 cut(s)	916
Eco47I	GGWCC	4 cut(s)	49, 464, 543, 982
Eco57I	CTGAAG	3 cut(s)	669, 771, 864
Eco81I	CCTNAGG	2 cut(s)	639, 765
EcoO109I	RGGNCCY	3 cut(s)	49, 543, 823
EcoRV	GATATC	1 cut(s)	916
EcoT14I	CCWWGG	1 cut(s)	481
ErhI	CCWWGG	1 cut(s)	481
FaeI	CATG	3 cut(s)	13, 485, 551
FaiI	YATR	6 cut(s)	11, 417, 459, 483, 549, 795
FaqI	GGGAC	1 cut(s)	577
FatI	CATG	3 cut(s)	9, 481, 547
FauI	CCCGC	1 cut(s)	154
Fnu4HI	GCNGC	6 cut(s)	59, 69, 90, 93, 493, 714
FokI	GGATG	2 cut(s)	362, 395
Fsp4HI	GCNGC	6 cut(s)	59, 69, 90, 93, 493, 714
GlaI	GCGC	1 cut(s)	533
GluI	GCNGC	6 cut(s)	59, 69, 90, 93, 493, 714
HaeII	RGCGCY	1 cut(s)	535
HaeIII	GGCC	3 cut(s)	222, 397, 824
HapII	CCGG	1 cut(s)	129
HgaI	GACGC	2 cut(s)	146, 579
HhaI	GCGC	1 cut(s)	534
Hin1I	GRCGYC	1 cut(s)	138
Hin1II	CATG	3 cut(s)	13, 485, 551
Hin6I	GCGC	1 cut(s)	532
HinP1I	GCGC	1 cut(s)	532
HinfI	GANTC	6 cut(s)	194, 281, 317, 657, 875, 934
HpaII	CCGG	1 cut(s)	129
HphI	GGTGA	5 cut(s)	65, 398, 533, 655, 943
Hpy166II	GTNNAC	3 cut(s)	233, 464, 982
Hpy188I	TCNGA	1 cut(s)	403
Hpy188III	TCNNGA	4 cut(s)	134, 278, 314, 638
Hpy8I	GTNNAC	3 cut(s)	233, 464, 982
Hpy99I	CGWCG	3 cut(s)	38, 140, 558
HpyCH4III	ACNGT	1 cut(s)	302
HpyCH4IV	ACGT	2 cut(s)	235, 553
HpyCH4V	TGCA	5 cut(s)	353, 665, 713, 829, 883
HpyF10VI	GCNNNNNNNGC	4 cut(s)	124, 146, 163, 830
HpyF3I	CTNAG	6 cut(s)	108, 114, 180, 639, 765, 864
HpySE526I	ACGT	2 cut(s)	235, 553
Hsp92I	GRCGYC	1 cut(s)	138
Hsp92II	CATG	3 cut(s)	13, 485, 551
HspAI	GCGC	1 cut(s)	532
KspI	CCGCGG	1 cut(s)	496
Kzo9I	GATC	2 cut(s)	617, 942
LmnI	GCTCC	1 cut(s)	529
Lsp1109I	GCAGC	3 cut(s)	45, 76, 725
LweI	GCATC	3 cut(s)	31, 340, 700
MaeII	ACGT	2 cut(s)	235, 553
MaeIII	GTNAC	1 cut(s)	643
MalI	GATC	2 cut(s)	619, 944
MboI	GATC	2 cut(s)	617, 942
MboII	GAAGA	7 cut(s)	662, 698, 764, 800, 821, 857, 910
MluCI	AATT	3 cut(s)	632, 869, 926
MlyI	GAGTC	2 cut(s)	666, 943
MseI	TTAA	2 cut(s)	837, 924
MspA1I	CMGCKG	1 cut(s)	495
MspCI	CTTAAG	1 cut(s)	836
MspI	CCGG	1 cut(s)	129
MspR9I	CCNGG	1 cut(s)	129
MvnI	CGCG	4 cut(s)	68, 471, 495, 573
MwoI	GCNNNNNNNGC	4 cut(s)	124, 146, 163, 830
NciI	CCSGG	1 cut(s)	129
NcoI	CCATGG	1 cut(s)	481
NdeII	GATC	2 cut(s)	617, 942
NlaIII	CATG	3 cut(s)	13, 485, 551
NlaIV	GGNNCC	3 cut(s)	51, 545, 762
NmeAIII	GCCGAG	1 cut(s)	70
NmuCI	GTSAC	1 cut(s)	643
PcsI	WCGNNNNNNNCGW	2 cut(s)	42, 220
PfeI	GAWTC	4 cut(s)	194, 281, 317, 875
PflFI	GACNNNGTC	1 cut(s)	656
PkrI	GCNGC	6 cut(s)	60, 70, 91, 94, 494, 715
PleI	GAGTC	2 cut(s)	665, 942
PpsI	GAGTC	2 cut(s)	665, 942
PpuMI	RGGWCCY	2 cut(s)	49, 543
Psp5II	RGGWCCY	2 cut(s)	49, 543
PspN4I	GGNNCC	3 cut(s)	51, 545, 762
PspPI	GGNCC	5 cut(s)	49, 464, 543, 823, 982
PspPPI	RGGWCCY	2 cut(s)	49, 543
PstI	CTGCAG	1 cut(s)	831
PstNI	CAGNNNCTG	1 cut(s)	326
PsyI	GACNNNGTC	1 cut(s)	656
RsaI	GTAC	1 cut(s)	308
RsaNI	GTAC	1 cut(s)	307
SacII	CCGCGG	1 cut(s)	496
SaqAI	TTAA	2 cut(s)	837, 924
SatI	GCNGC	6 cut(s)	59, 69, 90, 93, 493, 714
Sau3AI	GATC	2 cut(s)	617, 942
Sau96I	GGNCC	5 cut(s)	49, 464, 543, 823, 982
SbfI	CCTGCAGG	1 cut(s)	831
SchI	GAGTC	2 cut(s)	666, 943
ScrFI	CCNGG	1 cut(s)	129
SdaI	CCTGCAGG	1 cut(s)	831
SfaNI	GCATC	3 cut(s)	31, 340, 700
SfcI	CTRYAG	1 cut(s)	827
Sfr303I	CCGCGG	1 cut(s)	496
SgrBI	CCGCGG	1 cut(s)	496
SinI	GGWCC	4 cut(s)	49, 464, 543, 982
SmlI	CTYRAG	2 cut(s)	584, 836
SmoI	CTYRAG	2 cut(s)	584, 836
Sse8387I	CCTGCAGG	1 cut(s)	831
Sse9I	AATT	3 cut(s)	632, 869, 926
SsiI	CCGC	8 cut(s)	68, 93, 147, 258, 471, 493, 495, 573
StyD4I	CCNGG	1 cut(s)	127
StyI	CCWWGG	1 cut(s)	481
TaaI	ACNGT	1 cut(s)	302
TaiI	ACGT	2 cut(s)	238, 556
TaqI	TCGA	1 cut(s)	135
TasI	AATT	3 cut(s)	632, 869, 926
TauI	GCSGC	3 cut(s)	71, 95, 495
TfiI	GAWTC	4 cut(s)	194, 281, 317, 875
Tru1I	TTAA	2 cut(s)	837, 924
Tru9I	TTAA	2 cut(s)	837, 924
TscAI	CASTG	2 cut(s)	307, 885
TseFI	GTSAC	1 cut(s)	643
TseI	GCWGC	3 cut(s)	58, 89, 713
Tsp45I	GTSAC	1 cut(s)	643
TspDTI	ATGAA	9 cut(s)	26, 219, 309, 564, 594, 645, 759, 910, 962
TspGWI	ACGGA	2 cut(s)	553, 669
TspRI	CASTG	2 cut(s)	307, 885
Tth111I	GACNNNGTC	1 cut(s)	656
Vha464I	CTTAAG	1 cut(s)	836
VpaK11BI	GGWCC	4 cut(s)	49, 464, 543, 982
XapI	RAATTY	2 cut(s)	632, 869

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