Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0004915

Physical Location & Seq

Genomic Coordinates Reverse (-)

27557263 .. 27558402

Gene Structure 1140 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG145900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1140 bp

ATGATGATGATAGGTTCCATCTTACCCTTACCAGCTCCTCCTGCAAAATCAGTTGCCACGCATACCAAGGCTATTGGTATCATACCTCCTCCTCCAGGAATCAAAGTCGTCATTGATAAAACTGCTCAGCTCAGGGCAAAGAACGGACCCCAATTTGAACAGGTCATAGCTAAGAATCTAGACATAGCAAAATCAAATCTAAGCTTTTTGATTTCCTCAAATACCTACAATGCATATTATAAGTGCCGGGTGTCTGAATTCCTTGCCCAGCCTGATCAGTCTTATGAAGAGCCAGCTCCAGTTGTAGATGTTGAAGCTGGAGCACCAAAACCTGATTCTCCCTCCCAGCTTAGACCTGAATGCAAAGTGCCTGAACCATTAGAACCCGAAGAGTTTACTGTTCGGCTTCCTGAAGGAATTTGTGGAGAAGAACTAGATGTTATTAAACTCACAGCCCAGTTTGTAGCTCGAAATGGGAAATCGTTTTTGACAGGATTGAGAAGCAGAGAGATAAACAACCCCCTGTTCTATTTTCTCAAGCCTAATCATAGCATGTTCAACTTTTTCACTTCTCTGGCAGATGCATATTCAAAGGTGTTGATGCCACCAGAAGGATTGACAGGGAAGCTCAAGAAGAGCGTGGCAGACATGTCTACTGTGCTAGAACGGTGTGTGCATCGGCTGGAGTGGGAGGCTTATCAAAAGAAGGCAAAGCAGAAGGCCGAAGATGAGATTGAGCAGGAAAGGTTACAAATGGCTACAATTGATTGGCACGATAATGTCTTGGTCGAAGTCATAGACTTTGATGATGTTGAGGATGACTGTTTACCTCCTCCACTGAGCATCGAAGAGGTTATAAGGGGAAGCAAAGTTGTTATGGAAGCAGATGATAATGTCGAAATGGATATGGATGAAGAAGAGATGCAACTTGTTGAAGATGGAAAGAGGGTAACAGAGGTGGATCCAGAACAACCACCAATGAGAATTGTGAAGAACTGGAAGAGACCTGAGGAGAGGATGATCCAATCCAGTGCTGAAAGGGACATGACGATTTCCCCTATTACTGAGGAGCTTGTCCCTAACAATGAGATGTCTGAGCACATGAAGATTTCCCTCATTGATCCAAGATACAGAGAATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000245 GO:0000375 GO:0000377 GO:0000381 GO:0000389 GO:0000398 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005684 GO:0005686 GO:0006139 GO:0006376 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0010468 GO:0016043 GO:0016070 GO:0016071 GO:0019219 GO:0019222 GO:0022607 GO:0022613 GO:0022618 GO:0030532 GO:0031323 GO:0032991 GO:0034622 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043484 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0048024 GO:0050684 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065003 GO:0065007 GO:0071004 GO:0071010 GO:0071013 GO:0071704 GO:0071826 GO:0071840 GO:0080090 GO:0090304 GO:0097159 GO:0097525 GO:0120114 GO:1901360 GO:1901363 GO:1902494 GO:1903311 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

PRP21_like_P Surp ubiquitin

Protein Analysis

379

Amino Acids

42.91

Weight (kDa)

4.79

Isoelectric Point (pI)

52.33

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Surp	PF01805	37 - 87	1.8e-10	Surp module
Surp	PF01805	145 - 196	5e-17	Surp module
PRP21_like_P	PF12230	215 - 379	9e-38	Pre-mRNA splicing factor PRP21 like protein

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: OG0004915)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G06890
malus_domestica	MD10G1329400.v1.1
pyrus_communis	pycom05g32220 pycom10g27920
rosa_chinensis	RchiOBHm_Chr7g0191091
rosa_laevigata	RLG00000004475
rosa_multiflora	Rmu_sc0005151.1_g000002 Rmu_sc0005657.1_g000002 Rmu_sc0005903.1_g000003 Rmu_sc0005903.1_g000004 Rmu_sc0005903.1_g000005 Rmu_sc0013941.1_g000002 Rmu_sc0034959.1_g000001
rosa_roxburghii	Rroxscaffold_3G00264050 Rroxscaffold_5G00351920
rosa_rugosa	Rorug01G0317000 Rorug01G0317100
rosa_samantha	Rh1AG145900 Rh1AG325300 Rh3BG312100 Rh4AG053700 Rh4BG051600 Rh4DG247700 Rh7AG116000 Rh7BG117500 Rh7CG120900 Rh7DG298100
rosa_wichuraiana	Rw1G028860 Rw7G010070 Rw7G010160

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	240, 857
AccI	GTMKAC	1 cut(s)	653
AclWI	GGATC	4 cut(s)	956, 969, 1015, 1115
AcsI	RAATTY	2 cut(s)	257, 417
AcuI	CTGAAG	1 cut(s)	432
AfiI	CCNNNNNNNGG	2 cut(s)	95, 611
AflIII	ACRYGT	1 cut(s)	648
AgsI	TTSAA	5 cut(s)	158, 314, 559, 591, 935
AjnI	CCWGG	1 cut(s)	94
AjuI	GAANNNNNNNTTGG	2 cut(s)	319, 351
Alw21I	GWGCWC	2 cut(s)	325, 1101
Alw26I	GTCTC	1 cut(s)	997
AlwI	GGATC	4 cut(s)	956, 969, 1015, 1115
AoxI	GGCC	1 cut(s)	720
ApoI	RAATTY	2 cut(s)	257, 417
AspS9I	GGNCC	1 cut(s)	146
AsuC2I	CCSGG	1 cut(s)	248
AvaII	GGWCC	1 cut(s)	146
AxyI	CCTNAGG	1 cut(s)	1008
BamHI	GGATCC	1 cut(s)	961
Bbv12I	GWGCWC	2 cut(s)	325, 1101
BccI	CCATC	2 cut(s)	26, 932
BciT130I	CCWGG	1 cut(s)	96
BclI	TGATCA	1 cut(s)	274
BcnI	CCSGG	1 cut(s)	248
BcoDI	GTCTC	1 cut(s)	997
BfaI	CTAG	3 cut(s)	179, 434, 662
BlpI	GCTNAGC	1 cut(s)	126
Bme1390I	CCNGG	2 cut(s)	96, 248
Bme18I	GGWCC	1 cut(s)	146
BmgT120I	GGNCC	1 cut(s)	146
BmiI	GGNNCC	3 cut(s)	16, 148, 963
BmrFI	CCNGG	2 cut(s)	96, 248
BmrI	ACTGGG	1 cut(s)	451
BmsI	GCATC	5 cut(s)	571, 591, 685, 852, 912
BmuI	ACTGGG	1 cut(s)	451
BpmI	CTGGAG	4 cut(s)	78, 282, 339, 704
Bpu10I	CCTNAGC	1 cut(s)	131
Bpu1102I	GCTNAGC	1 cut(s)	126
BpuEI	CTTGAG	2 cut(s)	521, 614
BpuMI	CCSGG	1 cut(s)	248
BsaI	GGTCTC	1 cut(s)	997
BsaJI	CCNNGG	1 cut(s)	66
Bsc4I	CCNNNNNNNGG	2 cut(s)	95, 611
Bse1I	ACTGG	4 cut(s)	299, 457, 1001, 1029
Bse21I	CCTNAGG	1 cut(s)	1008
BseBI	CCWGG	1 cut(s)	96
BseDI	CCNNGG	1 cut(s)	66
BseGI	GGATG	3 cut(s)	823, 916, 1023
BseLI	CCNNNNNNNGG	2 cut(s)	95, 611
BseMII	CTCAG	6 cut(s)	140, 145, 830, 999, 1056, 1086
BseNI	ACTGG	4 cut(s)	299, 457, 1001, 1029
BseRI	GAGGAG	6 cut(s)	27, 78, 81, 822, 1025, 1082
BseYI	CCCAGC	2 cut(s)	267, 345
BshFI	GGCC	1 cut(s)	722
BsiHKAI	GWGCWC	2 cut(s)	325, 1101
BsiSI	CCGG	1 cut(s)	247
BslFI	GGGAC	2 cut(s)	1055, 1061
BslI	CCNNNNNNNGG	2 cut(s)	95, 611
BsmAI	GTCTC	1 cut(s)	997
BsmFI	GGGAC	2 cut(s)	1055, 1061
BsmI	GAATGC	1 cut(s)	365
BsnI	GGCC	1 cut(s)	722
Bso31I	GGTCTC	1 cut(s)	997
Bsp1286I	GDGCHC	2 cut(s)	325, 1101
Bsp143I	GATC	4 cut(s)	274, 961, 1020, 1120
Bsp1720I	GCTNAGC	1 cut(s)	126
BspANI	GGCC	1 cut(s)	722
BspCNI	CTCAG	6 cut(s)	139, 144, 831, 1000, 1057, 1087
BspLI	GGNNCC	3 cut(s)	16, 148, 963
BspPI	GGATC	4 cut(s)	956, 969, 1015, 1115
BspQI	GCTCTTC	2 cut(s)	282, 629
BspTNI	GGTCTC	1 cut(s)	997
BsrI	ACTGG	4 cut(s)	299, 457, 1001, 1029
BssECI	CCNNGG	1 cut(s)	66
BssMI	GATC	4 cut(s)	274, 961, 1020, 1120
BssT1I	CCWWGG	1 cut(s)	66
Bst2UI	CCWGG	1 cut(s)	96
Bst4CI	ACNGT	4 cut(s)	400, 658, 669, 824
Bst6I	CTCTTC	6 cut(s)	282, 384, 629, 843, 912, 995
BstC8I	GCNNGC	1 cut(s)	294
BstDEI	CTNAG	9 cut(s)	126, 131, 171, 200, 350, 839, 1008, 1065, 1095
BstENI	CCTNNNNNAGG	1 cut(s)	93
BstF5I	GGATG	3 cut(s)	823, 916, 1023
BstKTI	GATC	4 cut(s)	277, 964, 1023, 1123
BstMAI	GTCTC	1 cut(s)	997
BstMBI	GATC	4 cut(s)	274, 961, 1020, 1120
BstMWI	GCNNNNNNNGC	1 cut(s)	41
BstNI	CCWGG	1 cut(s)	96
BstNSI	RCATGY	2 cut(s)	556, 652
BstSCI	CCNGG	2 cut(s)	94, 246
BstX2I	RGATCY	1 cut(s)	961
BstYI	RGATCY	1 cut(s)	961
Bsu36I	CCTNAGG	1 cut(s)	1008
BsuRI	GGCC	1 cut(s)	722
BtsCI	GGATG	3 cut(s)	823, 916, 1023
BtsIMutI	CAGTG	2 cut(s)	836, 1036
Cac8I	GCNNGC	1 cut(s)	294
Cfr13I	GGNCC	1 cut(s)	146
CviAII	CATG	4 cut(s)	553, 649, 1045, 1102
DdeI	CTNAG	9 cut(s)	126, 131, 171, 200, 350, 839, 1008, 1065, 1095
DpnI	GATC	4 cut(s)	276, 963, 1022, 1122
DpnII	GATC	4 cut(s)	274, 961, 1020, 1120
Eam1104I	CTCTTC	6 cut(s)	282, 384, 629, 843, 912, 995
EarI	CTCTTC	6 cut(s)	282, 384, 629, 843, 912, 995
Eco130I	CCWWGG	1 cut(s)	66
Eco31I	GGTCTC	1 cut(s)	997
Eco47I	GGWCC	1 cut(s)	146
Eco57I	CTGAAG	1 cut(s)	432
Eco81I	CCTNAGG	1 cut(s)	1008
EcoNI	CCTNNNNNAGG	1 cut(s)	93
EcoRI	GAATTC	1 cut(s)	257
EcoRII	CCWGG	1 cut(s)	94
EcoT14I	CCWWGG	1 cut(s)	66
EcoT22I	ATGCAT	2 cut(s)	235, 586
ErhI	CCWWGG	1 cut(s)	66
FaeI	CATG	4 cut(s)	556, 652, 1048, 1105
FaqI	GGGAC	2 cut(s)	1055, 1061
FatI	CATG	4 cut(s)	552, 648, 1044, 1101
FbaI	TGATCA	1 cut(s)	274
FblI	GTMKAC	1 cut(s)	653
FokI	GGATG	3 cut(s)	830, 923, 1030
FspBI	CTAG	3 cut(s)	179, 434, 662
GsaI	CCCAGC	2 cut(s)	271, 349
GsuI	CTGGAG	4 cut(s)	78, 282, 339, 704
HaeIII	GGCC	1 cut(s)	722
HapII	CCGG	1 cut(s)	247
Hin1II	CATG	4 cut(s)	556, 652, 1048, 1105
HindIII	AAGCTT	1 cut(s)	202
HinfI	GANTC	3 cut(s)	99, 175, 335
HpaII	CCGG	1 cut(s)	247
Hpy166II	GTNNAC	3 cut(s)	396, 654, 827
Hpy188I	TCNGA	2 cut(s)	256, 1096
Hpy188III	TCNNGA	4 cut(s)	179, 410, 631, 965
Hpy8I	GTNNAC	3 cut(s)	396, 654, 827
HpyAV	CCTTC	4 cut(s)	407, 605, 700, 712
HpyCH4III	ACNGT	4 cut(s)	400, 658, 669, 824
HpyCH4V	TGCA	6 cut(s)	44, 233, 363, 584, 676, 925
HpyF10VI	GCNNNNNNNGC	1 cut(s)	41
HpyF3I	CTNAG	9 cut(s)	126, 131, 171, 200, 350, 839, 1008, 1065, 1095
Hsp92II	CATG	4 cut(s)	556, 652, 1048, 1105
Ksp22I	TGATCA	1 cut(s)	274
Kzo9I	GATC	4 cut(s)	274, 961, 1020, 1120
LguI	GCTCTTC	2 cut(s)	282, 629
LmnI	GCTCC	4 cut(s)	40, 301, 320, 1069
LweI	GCATC	5 cut(s)	571, 591, 685, 852, 912
MaeI	CTAG	3 cut(s)	179, 434, 662
MaeIII	GTNAC	2 cut(s)	747, 949
MalI	GATC	4 cut(s)	276, 963, 1022, 1122
MboI	GATC	4 cut(s)	274, 961, 1020, 1120
MfeI	CAATTG	1 cut(s)	762
MflI	RGATCY	1 cut(s)	961
MhlI	GDGCHC	2 cut(s)	325, 1101
MluCI	AATT	5 cut(s)	152, 257, 417, 762, 984
Mph1103I	ATGCAT	2 cut(s)	235, 586
MseI	TTAA	1 cut(s)	444
MslI	CAYNNNNRTG	1 cut(s)	777
MspI	CCGG	1 cut(s)	247
MspR9I	CCNGG	2 cut(s)	96, 248
MunI	CAATTG	1 cut(s)	762
Mva1269I	GAATGC	1 cut(s)	365
MvaI	CCWGG	1 cut(s)	96
MwoI	GCNNNNNNNGC	1 cut(s)	41
NciI	CCSGG	1 cut(s)	248
NdeII	GATC	4 cut(s)	274, 961, 1020, 1120
NlaIII	CATG	4 cut(s)	556, 652, 1048, 1105
NlaIV	GGNNCC	3 cut(s)	16, 148, 963
NsiI	ATGCAT	2 cut(s)	235, 586
NspI	RCATGY	2 cut(s)	556, 652
PciI	ACATGT	1 cut(s)	648
PciSI	GCTCTTC	2 cut(s)	282, 629
PctI	GAATGC	1 cut(s)	365
PfeI	GAWTC	3 cut(s)	99, 175, 335
PfoI	TCCNGGA	1 cut(s)	94
PscI	ACATGT	1 cut(s)	648
PsiI	TTATAA	2 cut(s)	240, 857
Psp6I	CCWGG	1 cut(s)	94
PspFI	CCCAGC	2 cut(s)	267, 345
PspGI	CCWGG	1 cut(s)	94
PspN4I	GGNNCC	3 cut(s)	16, 148, 963
PspPI	GGNCC	1 cut(s)	146
PsuI	RGATCY	1 cut(s)	961
RseI	CAYNNNNRTG	1 cut(s)	777
SapI	GCTCTTC	2 cut(s)	282, 629
SaqAI	TTAA	1 cut(s)	444
Sau3AI	GATC	4 cut(s)	274, 961, 1020, 1120
Sau96I	GGNCC	1 cut(s)	146
ScrFI	CCNGG	2 cut(s)	96, 248
SduI	GDGCHC	2 cut(s)	325, 1101
SfaNI	GCATC	5 cut(s)	571, 591, 685, 852, 912
SinI	GGWCC	1 cut(s)	146
SmiMI	CAYNNNNRTG	1 cut(s)	777
SmlI	CTYRAG	2 cut(s)	536, 629
SmoI	CTYRAG	2 cut(s)	536, 629
Sse9I	AATT	5 cut(s)	152, 257, 417, 762, 984
SspMI	CTAG	3 cut(s)	179, 434, 662
StyD4I	CCNGG	2 cut(s)	94, 246
StyI	CCWWGG	1 cut(s)	66
TaaI	ACNGT	4 cut(s)	400, 658, 669, 824
TaqI	TCGA	4 cut(s)	469, 789, 846, 897
TasI	AATT	5 cut(s)	152, 257, 417, 762, 984
TfiI	GAWTC	3 cut(s)	99, 175, 335
Tru1I	TTAA	1 cut(s)	444
Tru9I	TTAA	1 cut(s)	444
TscAI	CASTG	2 cut(s)	843, 1036
TspDTI	ATGAA	3 cut(s)	300, 927, 1118
TspGWI	ACGGA	1 cut(s)	159
TspRI	CASTG	2 cut(s)	843, 1036
VpaK11BI	GGWCC	1 cut(s)	146
XagI	CCTNNNNNAGG	1 cut(s)	93
XapI	RAATTY	2 cut(s)	257, 417
XbaI	TCTAGA	1 cut(s)	178
XceI	RCATGY	2 cut(s)	556, 652
XmiI	GTMKAC	1 cut(s)	653
XspI	CTAG	3 cut(s)	179, 434, 662
Zsp2I	ATGCAT	2 cut(s)	235, 586

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