Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7B

Orthogroup ID

OG0001809

Physical Location & Seq

Genomic Coordinates Forward (+)

18240095 .. 18243495

Gene Structure 3401 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7BG213600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1131 bp

ATGGCAACCGCGAACCCTTTCGATCTGTTGGGCGATGACGACAACGATGACGTAAGTCAACTCGCTGCTAAGGTGGTGGCTCCTGCCGCCGCCGCCCAGCCCAAGAAGGGTGCCCCGGCCCAAGCTGTTCAGCCGGCTAAGTCCGCCAAGCTCCCCTCCAAGCCTCTCCCTCCTGCTCAAGCTGTGAGGGAAGGTGGGCGTGGAGGTGGCCGTGGTGGCGGCCGAGGGTTTGGTGGTGAGGGCCGTGGATATGGTGAGGGCCGTGGGTATGGTGGTCGTGGACGTGGTGGTGGATATGGTGGATATAATCGGGATCGTGGCAGCGATGAGAACACTAATGGTTTCTCGGGTGGAGGGTACAGCAAACCCGAAGAGGGGGATAGGGATGTTTCTGAAAGGCGTGGTGGCTACGGGGCACCTCGTGGTTCCTTCCGTGGTGGACGCCGTGGTGGCTTTAGCAATGGAGAGGATGCAGAAGGGGAGCGTCCTCGGAGGACATTTGACCGTCACAGTGGCACTGGACGTGGAGCTAACTTTAAACGTGATGGAGCTGGTCGTGGGAATTGGGGAACTCCCACTGATGAAATTGCTTCGGAGATAGAGGCTGGCACTGAAGTTGAGAAGGATGTTGGTGCTGAGAAGCAGTTGGGAGAGAATGAGGCTGCTGATGCCAGCAAGGAGAATCCTGTGGAAGAGCCAGAAGAGAAGGAGCCTGAGGAAAAGGAGATGACTCTGGAAGAGTATGAGAAGGTTCTTGAAGAGAAGAGGAAGGCTCTGGCTGCACTTAAGACTGAGGAGAGAAAGGTTGACTTGGACAAAGAGTTGAAGTCTATGCAGCAGCTCTCAAGCAAGAAGACAAATGATGAAATTTTTATCAAGCTGGGTTCTGAAAAGGATAAACGCAAGGAAGCTGCTGAGAAGGAGGAGAGAGCCAAGAAGTCTGTTAGCATAAACGAATTCCTGAAGCCTGCTGAAGGGGAGAACCAGAGGTTCTATGGTGGTCGTAATCGGGGCCGTGGAGGCCGTGGTTCAAGAGGTGGAAACAGTGGAGGACATGGAGGTTACTCGAGCAATGTGCAAGCACCGCCCATTGCAGATCCTGGGCACTTCCCATCCCTTGGTGGCAAATGA

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

376

Amino Acids

39.84

Weight (kDa)

6.92

Isoelectric Point (pI)

35.49

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Stm1_N	PF09598	1 - 74	1.2e-21	Stm1
HABP4_PAI-RBP1	PF04774	163 - 269	4.7e-30	Hyaluronan / mRNA binding family

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: 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)
AccB1I	GGYRCC	2 cut(s)	110, 415
AccB7I	CCANNNNNTGG	1 cut(s)	1118
AccII	CGCG	1 cut(s)	11
AciI	CCGC	7 cut(s)	9, 87, 90, 93, 144, 219, 1085
AclWI	GGATC	2 cut(s)	321, 1091
AcoI	YGGCCR	2 cut(s)	208, 220
AcsI	RAATTY	2 cut(s)	867, 956
AcuI	CTGAAG	3 cut(s)	633, 983, 993
AcyI	GRCGYC	1 cut(s)	442
AdeI	CACNNNGTG	1 cut(s)	422
AfaI	GTAC	1 cut(s)	359
AfiI	CCNNNNNNNGG	5 cut(s)	107, 374, 375, 974, 1118
AflII	CTTAAG	1 cut(s)	785
AgsI	TTSAA	3 cut(s)	758, 826, 1032
AjiI	CACGTC	2 cut(s)	284, 524
AjnI	CCWGG	1 cut(s)	1099
AluBI	AGCT	8 cut(s)	125, 151, 182, 530, 551, 841, 880, 911
AluI	AGCT	8 cut(s)	125, 151, 182, 530, 551, 841, 880, 911
AlwI	GGATC	2 cut(s)	321, 1091
AlwNI	CAGNNNCTG	1 cut(s)	1100
Ama87I	CYCGRG	2 cut(s)	346, 1066
AoxI	GGCC	7 cut(s)	117, 208, 220, 241, 259, 1012, 1021
ApeKI	GCWGC	7 cut(s)	65, 321, 662, 779, 835, 838, 911
ApoI	RAATTY	2 cut(s)	867, 956
Asp700I	GAANNNNTTC	1 cut(s)	17
AspS9I	GGNCC	4 cut(s)	118, 241, 259, 1012
AsuC2I	CCSGG	1 cut(s)	116
AsuHPI	GGTGA	2 cut(s)	248, 266
AvaI	CYCGRG	2 cut(s)	346, 1066
AxyI	CCTNAGG	1 cut(s)	714
BaeGI	GKGCMC	3 cut(s)	115, 418, 1107
BanI	GGYRCC	2 cut(s)	110, 415
BauI	CACGAG	1 cut(s)	420
BbsI	GAAGAC	1 cut(s)	860
BbvI	GCAGC	7 cut(s)	52, 333, 649, 766, 847, 850, 898
BccI	CCATC	2 cut(s)	539, 1120
BceAI	ACGGC	6 cut(s)	195, 228, 246, 429, 999, 1008
BcgI	CGANNNNNNTGC	2 cut(s)	1057, 1091
BciT130I	CCWGG	1 cut(s)	1101
BcnI	CCSGG	1 cut(s)	116
BfrI	CTTAAG	1 cut(s)	785
BglI	GCCNNNNNGGC	3 cut(s)	216, 450, 1020
Bme1390I	CCNGG	2 cut(s)	116, 1101
BmeT110I	CYCGRG	2 cut(s)	346, 1066
BmgBI	CACGTC	2 cut(s)	284, 524
BmgT120I	GGNCC	4 cut(s)	118, 241, 259, 1012
BmiI	GGNNCC	6 cut(s)	81, 112, 417, 427, 711, 1013
BmrFI	CCNGG	2 cut(s)	116, 1101
BmsI	GCATC	2 cut(s)	460, 658
BoxI	GACNNNNGTC	1 cut(s)	54
BpiI	GAAGAC	1 cut(s)	860
BplI	GAGNNNNNCTC	2 cut(s)	757, 789
Bpu10I	CCTNAGC	1 cut(s)	69
BpuEI	CTTGAG	2 cut(s)	162, 829
BpuMI	CCSGG	1 cut(s)	116
BsaHI	GRCGYC	1 cut(s)	442
Bsc4I	CCNNNNNNNGG	5 cut(s)	107, 374, 375, 974, 1118
Bse118I	RCCGGY	1 cut(s)	133
Bse1I	ACTGG	1 cut(s)	523
Bse21I	CCTNAGG	1 cut(s)	714
Bse3DI	GCAATG	3 cut(s)	466, 1078, 1089
BseBI	CCWGG	1 cut(s)	1101
BseGI	GGATG	4 cut(s)	391, 475, 631, 1112
BseLI	CCNNNNNNNGG	5 cut(s)	107, 374, 375, 974, 1118
BseMI	GCAATG	3 cut(s)	466, 1078, 1089
BseMII	CTCAG	4 cut(s)	627, 705, 783, 906
BseNI	ACTGG	1 cut(s)	523
BseRI	GAGGAG	2 cut(s)	809, 938
BseSI	GKGCMC	3 cut(s)	115, 418, 1107
BseX3I	CGGCCG	1 cut(s)	220
BseXI	GCAGC	7 cut(s)	52, 333, 649, 766, 847, 850, 898
BseYI	CCCAGC	2 cut(s)	96, 880
BsgI	GTGCAG	1 cut(s)	765
Bsh1236I	CGCG	1 cut(s)	11
Bsh1285I	CGRYCG	1 cut(s)	223
BshFI	GGCC	7 cut(s)	119, 210, 222, 243, 261, 1014, 1023
BshNI	GGYRCC	2 cut(s)	110, 415
BsiEI	CGRYCG	1 cut(s)	223
BsiHKCI	CYCGRG	2 cut(s)	346, 1066
BsiSI	CCGG	2 cut(s)	116, 134
BslI	CCNNNNNNNGG	5 cut(s)	107, 374, 375, 974, 1118
BsnI	GGCC	7 cut(s)	119, 210, 222, 243, 261, 1014, 1023
BsoBI	CYCGRG	2 cut(s)	346, 1066
Bsp1286I	GDGCHC	3 cut(s)	115, 418, 1107
Bsp143I	GATC	3 cut(s)	22, 313, 1096
BspACI	CCGC	7 cut(s)	9, 87, 90, 93, 144, 219, 1085
BspANI	GGCC	7 cut(s)	119, 210, 222, 243, 261, 1014, 1023
BspCNI	CTCAG	4 cut(s)	628, 706, 784, 907
BspFNI	CGCG	1 cut(s)	11
BspLI	GGNNCC	6 cut(s)	81, 112, 417, 427, 711, 1013
BspPI	GGATC	2 cut(s)	321, 1091
BspQI	GCTCTTC	1 cut(s)	687
BspT107I	GGYRCC	2 cut(s)	110, 415
BspTI	CTTAAG	1 cut(s)	785
BsrDI	GCAATG	3 cut(s)	466, 1078, 1089
BsrFI	RCCGGY	1 cut(s)	133
BsrI	ACTGG	1 cut(s)	523
BssAI	RCCGGY	1 cut(s)	133
BssMI	GATC	3 cut(s)	22, 313, 1096
BssNI	GRCGYC	1 cut(s)	442
BssSI	CACGAG	1 cut(s)	420
BssT1I	CCWWGG	1 cut(s)	1117
Bst2BI	CACGAG	1 cut(s)	420
Bst2UI	CCWGG	1 cut(s)	1101
Bst4CI	ACNGT	3 cut(s)	506, 512, 1046
Bst6I	CTCTTC	6 cut(s)	366, 687, 696, 732, 753, 758
BstACI	GRCGYC	1 cut(s)	442
BstAFI	CTTAAG	1 cut(s)	785
BstC8I	GCNNGC	5 cut(s)	135, 607, 673, 969, 1080
BstDEI	CTNAG	6 cut(s)	69, 138, 636, 714, 792, 915
BstDSI	CCRYGG	7 cut(s)	211, 244, 262, 433, 445, 1015, 1024
BstENI	CCTNNNNNAGG	1 cut(s)	972
BstF5I	GGATG	4 cut(s)	391, 475, 631, 1112
BstFNI	CGCG	1 cut(s)	11
BstKTI	GATC	3 cut(s)	25, 316, 1099
BstMBI	GATC	3 cut(s)	22, 313, 1096
BstMCI	CGRYCG	1 cut(s)	223
BstMWI	GCNNNNNNNGC	9 cut(s)	86, 92, 143, 216, 450, 668, 779, 1020, 1084
BstNI	CCWGG	1 cut(s)	1101
BstPAI	GACNNNNGTC	1 cut(s)	54
BstSCI	CCNGG	2 cut(s)	114, 1099
BstSLI	GKGCMC	3 cut(s)	115, 418, 1107
BstUI	CGCG	1 cut(s)	11
BstV1I	GCAGC	7 cut(s)	52, 333, 649, 766, 847, 850, 898
BstV2I	GAAGAC	1 cut(s)	860
BstX2I	RGATCY	1 cut(s)	1096
BstYI	RGATCY	1 cut(s)	1096
BstZI	CGGCCG	1 cut(s)	220
Bsu36I	CCTNAGG	1 cut(s)	714
BsuRI	GGCC	7 cut(s)	119, 210, 222, 243, 261, 1014, 1023
BtgI	CCRYGG	7 cut(s)	211, 244, 262, 433, 445, 1015, 1024
BtgZI	GCGATG	2 cut(s)	48, 339
BtrI	CACGTC	2 cut(s)	284, 524
BtsCI	GGATG	4 cut(s)	391, 475, 631, 1112
BtsIMutI	CAGTG	5 cut(s)	516, 517, 576, 609, 1051
Cac8I	GCNNGC	5 cut(s)	135, 607, 673, 969, 1080
CaiI	CAGNNNCTG	1 cut(s)	1100
Cfr10I	RCCGGY	1 cut(s)	133
Cfr13I	GGNCC	4 cut(s)	118, 241, 259, 1012
CseI	GACGC	2 cut(s)	450, 473
Csp6I	GTAC	1 cut(s)	358
CviAII	CATG	1 cut(s)	1055
CviQI	GTAC	1 cut(s)	358
DdeI	CTNAG	6 cut(s)	69, 138, 636, 714, 792, 915
DpnI	GATC	3 cut(s)	24, 315, 1098
DpnII	GATC	3 cut(s)	22, 313, 1096
DraI	TTTAAA	1 cut(s)	538
DraIII	CACNNNGTG	1 cut(s)	422
EaeI	YGGCCR	2 cut(s)	208, 220
EagI	CGGCCG	1 cut(s)	220
Eam1104I	CTCTTC	6 cut(s)	366, 687, 696, 732, 753, 758
EarI	CTCTTC	6 cut(s)	366, 687, 696, 732, 753, 758
EciI	GGCGGA	1 cut(s)	133
EclXI	CGGCCG	1 cut(s)	220
Eco130I	CCWWGG	1 cut(s)	1117
Eco52I	CGGCCG	1 cut(s)	220
Eco57I	CTGAAG	3 cut(s)	633, 983, 993
Eco81I	CCTNAGG	1 cut(s)	714
Eco88I	CYCGRG	2 cut(s)	346, 1066
EcoNI	CCTNNNNNAGG	1 cut(s)	972
EcoRI	GAATTC	1 cut(s)	956
EcoRII	CCWGG	1 cut(s)	1099
EcoT14I	CCWWGG	1 cut(s)	1117
ErhI	CCWWGG	1 cut(s)	1117
FaeI	CATG	1 cut(s)	1058
FaiI	YATR	9 cut(s)	252, 270, 297, 306, 744, 833, 950, 996, 1056
FalI	AAGNNNNNCTT	2 cut(s)	794, 826
FatI	CATG	1 cut(s)	1054
FokI	GGATG	4 cut(s)	398, 482, 638, 1099
GsaI	CCCAGC	2 cut(s)	100, 884
HaeIII	GGCC	7 cut(s)	119, 210, 222, 243, 261, 1014, 1023
HapII	CCGG	2 cut(s)	116, 134
HgaI	GACGC	2 cut(s)	450, 473
Hin1I	GRCGYC	1 cut(s)	442
Hin1II	CATG	1 cut(s)	1058
HincII	GTYRAC	2 cut(s)	59, 808
HindII	GTYRAC	2 cut(s)	59, 808
HinfI	GANTC	2 cut(s)	682, 730
HpaII	CCGG	2 cut(s)	116, 134
HphI	GGTGA	2 cut(s)	248, 266
Hpy166II	GTNNAC	4 cut(s)	59, 281, 440, 808
Hpy188I	TCNGA	4 cut(s)	394, 492, 595, 889
Hpy188III	TCNNGA	5 cut(s)	311, 734, 755, 961, 1032
Hpy8I	GTNNAC	4 cut(s)	59, 281, 440, 808
HpyCH4III	ACNGT	3 cut(s)	506, 512, 1046
HpyCH4IV	ACGT	4 cut(s)	51, 283, 523, 541
HpyCH4V	TGCA	5 cut(s)	473, 782, 835, 1078, 1094
HpyF10VI	GCNNNNNNNGC	9 cut(s)	86, 92, 143, 216, 450, 668, 779, 1020, 1084
HpyF3I	CTNAG	6 cut(s)	69, 138, 636, 714, 792, 915
HpySE526I	ACGT	4 cut(s)	51, 283, 523, 541
Hsp92I	GRCGYC	1 cut(s)	442
Hsp92II	CATG	1 cut(s)	1058
KroI	GCCGGC	1 cut(s)	133
KroNI	GCCGGC	1 cut(s)	135
Kzo9I	GATC	3 cut(s)	22, 313, 1096
LguI	GCTCTTC	1 cut(s)	687
LmnI	GCTCC	6 cut(s)	85, 156, 481, 527, 548, 709
Lsp1109I	GCAGC	7 cut(s)	52, 333, 649, 766, 847, 850, 898
LweI	GCATC	2 cut(s)	460, 658
MaeII	ACGT	4 cut(s)	51, 283, 523, 541
MaeIII	GTNAC	2 cut(s)	506, 1061
MalI	GATC	3 cut(s)	24, 315, 1098
MboI	GATC	3 cut(s)	22, 313, 1096
MboII	GAAGA	7 cut(s)	383, 704, 713, 749, 770, 775, 865
MflI	RGATCY	1 cut(s)	1096
MhlI	GDGCHC	3 cut(s)	115, 418, 1107
MluCI	AATT	4 cut(s)	562, 585, 867, 956
MlyI	GAGTC	1 cut(s)	724
MroNI	GCCGGC	1 cut(s)	133
MroXI	GAANNNNTTC	1 cut(s)	17
MseI	TTAA	2 cut(s)	537, 786
MspCI	CTTAAG	1 cut(s)	785
MspI	CCGG	2 cut(s)	116, 134
MspR9I	CCNGG	2 cut(s)	116, 1101
MvaI	CCWGG	1 cut(s)	1101
MvnI	CGCG	1 cut(s)	11
MwoI	GCNNNNNNNGC	9 cut(s)	86, 92, 143, 216, 450, 668, 779, 1020, 1084
NaeI	GCCGGC	1 cut(s)	135
NciI	CCSGG	1 cut(s)	116
NdeII	GATC	3 cut(s)	22, 313, 1096
NgoMIV	GCCGGC	1 cut(s)	133
NlaIII	CATG	1 cut(s)	1058
NlaIV	GGNNCC	6 cut(s)	81, 112, 417, 427, 711, 1013
NmeAIII	GCCGAG	1 cut(s)	248
NmuCI	GTSAC	1 cut(s)	506
PaeR7I	CTCGAG	1 cut(s)	1066
PciSI	GCTCTTC	1 cut(s)	687
PdiI	GCCGGC	1 cut(s)	135
PdmI	GAANNNNTTC	1 cut(s)	17
PfeI	GAWTC	1 cut(s)	682
PflMI	CCANNNNNTGG	1 cut(s)	1118
PleI	GAGTC	1 cut(s)	724
PpsI	GAGTC	1 cut(s)	724
PshAI	GACNNNNGTC	1 cut(s)	54
Psp6I	CCWGG	1 cut(s)	1099
PspFI	CCCAGC	2 cut(s)	96, 880
PspGI	CCWGG	1 cut(s)	1099
PspN4I	GGNNCC	6 cut(s)	81, 112, 417, 427, 711, 1013
PspPI	GGNCC	4 cut(s)	118, 241, 259, 1012
PspXI	VCTCGAGB	1 cut(s)	1066
PstNI	CAGNNNCTG	1 cut(s)	1100
PsuI	RGATCY	1 cut(s)	1096
RsaI	GTAC	1 cut(s)	359
RsaNI	GTAC	1 cut(s)	358
SapI	GCTCTTC	1 cut(s)	687
SaqAI	TTAA	2 cut(s)	537, 786
Sau3AI	GATC	3 cut(s)	22, 313, 1096
Sau96I	GGNCC	4 cut(s)	118, 241, 259, 1012
SchI	GAGTC	1 cut(s)	724
ScrFI	CCNGG	2 cut(s)	116, 1101
SduI	GDGCHC	3 cut(s)	115, 418, 1107
SfaNI	GCATC	2 cut(s)	460, 658
SfiI	GGCCNNNNNGGCC	1 cut(s)	1020
Sfr274I	CTCGAG	1 cut(s)	1066
SlaI	CTCGAG	1 cut(s)	1066
SmlI	CTYRAG	4 cut(s)	177, 785, 844, 1066
SmoI	CTYRAG	4 cut(s)	177, 785, 844, 1066
Sse9I	AATT	4 cut(s)	562, 585, 867, 956
SsiI	CCGC	7 cut(s)	9, 87, 90, 93, 144, 219, 1085
StyD4I	CCNGG	2 cut(s)	114, 1099
StyI	CCWWGG	1 cut(s)	1117
TaaI	ACNGT	3 cut(s)	506, 512, 1046
TaiI	ACGT	4 cut(s)	54, 286, 526, 544
TaqI	TCGA	2 cut(s)	21, 1067
TasI	AATT	4 cut(s)	562, 585, 867, 956
TauI	GCSGC	4 cut(s)	89, 92, 95, 222
TfiI	GAWTC	1 cut(s)	682
Tru1I	TTAA	2 cut(s)	537, 786
Tru9I	TTAA	2 cut(s)	537, 786
TscAI	CASTG	5 cut(s)	517, 523, 583, 616, 1051
TseFI	GTSAC	1 cut(s)	506
TseI	GCWGC	7 cut(s)	65, 321, 662, 779, 835, 838, 911
Tsp45I	GTSAC	1 cut(s)	506
TspDTI	ATGAA	2 cut(s)	597, 879
TspGWI	ACGGA	1 cut(s)	422
TspRI	CASTG	5 cut(s)	517, 523, 583, 616, 1051
Van91I	CCANNNNNTGG	1 cut(s)	1118
Vha464I	CTTAAG	1 cut(s)	785
XagI	CCTNNNNNAGG	1 cut(s)	972
XapI	RAATTY	2 cut(s)	867, 956
XcmI	CCANNNNNNNNNTGG	1 cut(s)	992
XhoI	CTCGAG	1 cut(s)	1066
XmnI	GAANNNNTTC	1 cut(s)	17

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