Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0004915

Physical Location & Seq

Genomic Coordinates Reverse (-)

55892592 .. 55895355

Gene Structure 2764 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG325300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1200 bp

ATGATGATGATAGGTTCCATCTTACCCTTACCAGCTCCTCCTGCAAAATCAGTTGCCACACATACCAAGGCTATTGGTATCATACCTCCTCCTCCAGGAATCAAAGTCGTCATTGATAAAACTGCTCAGCTCGTGGCAAAGAACGGACCCCAATTTGAACAGGTCATAGCTAAGAATCTAGACATAGCAAAATCAAATCTAAGCTTTTTGATTTCCTCAAATCCCTACAATGCATATTATAAGCGCCGGGTGTCTGAATTCCTTGCCCAGCCTGATCAGTCTTATGAAGAGCCAGCTCCAGTTGTAGATGTTGAAGCTGGAGCACCAAAACCTGATTCTCCCTCCCAGCTTAGACCTGAATGCAAAGTGCCTGAACCATCAGAACCTGAAGAGTTTACTGTTCGGCTTCCTGAAGGAATTTGTGGAGAAGAACTAGATGTTATTAAACTCACAGCCCAATGCATATTCAAGGTGTTGATGCCACCAGAAGGATTGACAGGGAAGCTCAAGAAGAGTGTGGCAGACATGTCTACTGTGCTAGAACGGTGTGTGCATCGGCTGGAGTGGGAGGCTTATCAAAAGAAGGCAAAGCAGAAGGCCGAAGATGAGATTGAGCAGGAAAGGTTACAAATGGCTGCAATTGATTGGCACGATAATGTCTTGGTCAAAGTCATAGACTTTGATGATGTTGAGGATGACTGTTTACCTCCTCCACTGAGCATCGAAGAGGTTATAAGGGGAAGCAAAGTTGTTATGGAAGCAAATGATAATGTCGAAATGGATATGGATGAAGAAGAGATGCAACTTGTTGAAGATGGAAAAAGGGTAACAGAGGTGGATCCAGAACAACCACCAATGAGAATTGTGAAGAACTGGAAGAGACCTGAGGAGAGGATGATCCAATCCAGTGCTGAAAGGGACATGACGATTTCCCCTATTACTGGGGAGCTTGTCCCTAACAATGAGATGTCTGAGCACATGAAGATTTCCCTCATTGATCCAAGATACAGAGAACAGAAAGAAAGGATGTTTGCTAAGATTCGGGAGACTAGTCTTGTTCTTGCACAGGACGATGAGATCTCAAGAAACATAGTGAACCTTGCGCGGACCCGTCCTGATATTTTTGGTTCCACCGAGGAGGAAGTTTCAAATGCTGTCAAGGCTGAGATTCAAAATCAAGCGATATCACTCAAGACCTGA

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

399

Amino Acids

44.92

Weight (kDa)

4.79

Isoelectric Point (pI)

54.46

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Surp	PF01805	37 - 87	4.9e-14	Surp module
PRP21_like_P	PF12230	174 - 369	7.1e-47	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

Style Settings

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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, 734
AccI	GTMKAC	1 cut(s)	530
AccII	CGCG	1 cut(s)	1105
AciI	CCGC	1 cut(s)	1105
AclWI	GGATC	4 cut(s)	833, 846, 892, 992
AcsI	RAATTY	2 cut(s)	257, 417
AcuI	CTGAAG	2 cut(s)	408, 432
AfiI	CCNNNNNNNGG	3 cut(s)	95, 488, 941
AflIII	ACRYGT	1 cut(s)	525
AgsI	TTSAA	6 cut(s)	158, 314, 469, 812, 1149, 1172
AhlI	ACTAGT	1 cut(s)	1049
AjnI	CCWGG	1 cut(s)	94
AjuI	GAANNNNNNNTTGG	2 cut(s)	319, 351
AluBI	AGCT	9 cut(s)	35, 130, 170, 204, 296, 317, 349, 505, 949
AluI	AGCT	9 cut(s)	35, 130, 170, 204, 296, 317, 349, 505, 949
Alw21I	GWGCWC	2 cut(s)	325, 978
Alw26I	GTCTC	2 cut(s)	874, 1040
AlwI	GGATC	4 cut(s)	833, 846, 892, 992
AlwNI	CAGNNNCTG	1 cut(s)	386
AoxI	GGCC	1 cut(s)	597
ApeKI	GCWGC	1 cut(s)	635
ApoI	RAATTY	2 cut(s)	257, 417
AspLEI	GCGC	2 cut(s)	246, 1105
AspS9I	GGNCC	2 cut(s)	146, 1107
AsuC2I	CCSGG	1 cut(s)	248
AvaII	GGWCC	2 cut(s)	146, 1107
AxyI	CCTNAGG	1 cut(s)	885
BamHI	GGATCC	1 cut(s)	838
BauI	CACGAG	1 cut(s)	131
Bbv12I	GWGCWC	2 cut(s)	325, 978
BbvI	GCAGC	1 cut(s)	622
BccI	CCATC	3 cut(s)	26, 385, 809
BciT130I	CCWGG	1 cut(s)	96
BclI	TGATCA	1 cut(s)	274
BcnI	CCSGG	1 cut(s)	248
BcoDI	GTCTC	2 cut(s)	874, 1040
BcuI	ACTAGT	1 cut(s)	1049
BfaI	CTAG	4 cut(s)	179, 434, 539, 1050
BfoI	RGCGCY	1 cut(s)	247
BglII	AGATCT	1 cut(s)	1077
BisI	GCNGC	1 cut(s)	636
BlpI	GCTNAGC	1 cut(s)	126
BlsI	GCNGC	1 cut(s)	637
Bme1390I	CCNGG	2 cut(s)	96, 248
Bme18I	GGWCC	2 cut(s)	146, 1107
BmgT120I	GGNCC	2 cut(s)	146, 1107
BmiI	GGNNCC	5 cut(s)	16, 148, 840, 1109, 1129
BmrFI	CCNGG	2 cut(s)	96, 248
BmrI	ACTGGG	1 cut(s)	951
BmsI	GCATC	4 cut(s)	468, 562, 729, 789
BmuI	ACTGGG	1 cut(s)	951
BpmI	CTGGAG	4 cut(s)	78, 282, 339, 581
Bpu1102I	GCTNAGC	1 cut(s)	126
BpuEI	CTTGAG	3 cut(s)	491, 1066, 1175
BpuMI	CCSGG	1 cut(s)	248
BsaI	GGTCTC	1 cut(s)	874
BsaJI	CCNNGG	2 cut(s)	66, 1134
Bsc4I	CCNNNNNNNGG	3 cut(s)	95, 488, 941
Bse1I	ACTGG	4 cut(s)	299, 878, 906, 946
Bse21I	CCTNAGG	1 cut(s)	885
BseBI	CCWGG	1 cut(s)	96
BseDI	CCNNGG	2 cut(s)	66, 1134
BseGI	GGATG	4 cut(s)	700, 793, 900, 1032
BseLI	CCNNNNNNNGG	3 cut(s)	95, 488, 941
BseMII	CTCAG	5 cut(s)	140, 707, 876, 963, 1155
BseNI	ACTGG	4 cut(s)	299, 878, 906, 946
BseRI	GAGGAG	6 cut(s)	27, 78, 81, 699, 902, 1151
BseXI	GCAGC	1 cut(s)	622
BseYI	CCCAGC	2 cut(s)	267, 345
Bsh1236I	CGCG	1 cut(s)	1105
BshFI	GGCC	1 cut(s)	599
BsiHKAI	GWGCWC	2 cut(s)	325, 978
BsiSI	CCGG	1 cut(s)	247
BslFI	GGGAC	2 cut(s)	932, 938
BslI	CCNNNNNNNGG	3 cut(s)	95, 488, 941
BsmAI	GTCTC	2 cut(s)	874, 1040
BsmFI	GGGAC	2 cut(s)	932, 938
BsmI	GAATGC	1 cut(s)	365
BsnI	GGCC	1 cut(s)	599
Bso31I	GGTCTC	1 cut(s)	874
Bsp1286I	GDGCHC	2 cut(s)	325, 978
Bsp143I	GATC	5 cut(s)	274, 838, 897, 997, 1077
Bsp1720I	GCTNAGC	1 cut(s)	126
BspACI	CCGC	1 cut(s)	1105
BspANI	GGCC	1 cut(s)	599
BspCNI	CTCAG	5 cut(s)	139, 708, 877, 964, 1156
BspFNI	CGCG	1 cut(s)	1105
BspLI	GGNNCC	5 cut(s)	16, 148, 840, 1109, 1129
BspPI	GGATC	4 cut(s)	833, 846, 892, 992
BspQI	GCTCTTC	1 cut(s)	282
BspTNI	GGTCTC	1 cut(s)	874
BsrI	ACTGG	4 cut(s)	299, 878, 906, 946
BssECI	CCNNGG	2 cut(s)	66, 1134
BssMI	GATC	5 cut(s)	274, 838, 897, 997, 1077
BssSI	CACGAG	1 cut(s)	131
BssT1I	CCWWGG	1 cut(s)	66
Bst2BI	CACGAG	1 cut(s)	131
Bst2UI	CCWGG	1 cut(s)	96
Bst4CI	ACNGT	4 cut(s)	400, 535, 546, 701
Bst6I	CTCTTC	6 cut(s)	282, 384, 506, 720, 789, 872
BstC8I	GCNNGC	1 cut(s)	294
BstDEI	CTNAG	9 cut(s)	126, 171, 200, 350, 716, 885, 972, 1035, 1164
BstENI	CCTNNNNNAGG	1 cut(s)	93
BstF5I	GGATG	4 cut(s)	700, 793, 900, 1032
BstFNI	CGCG	1 cut(s)	1105
BstH2I	RGCGCY	1 cut(s)	247
BstHHI	GCGC	2 cut(s)	246, 1105
BstKTI	GATC	5 cut(s)	277, 841, 900, 1000, 1080
BstMAI	GTCTC	2 cut(s)	874, 1040
BstMBI	GATC	5 cut(s)	274, 838, 897, 997, 1077
BstMWI	GCNNNNNNNGC	2 cut(s)	41, 1160
BstNI	CCWGG	1 cut(s)	96
BstNSI	RCATGY	1 cut(s)	529
BstSCI	CCNGG	2 cut(s)	94, 246
BstUI	CGCG	1 cut(s)	1105
BstV1I	GCAGC	1 cut(s)	622
BstX2I	RGATCY	2 cut(s)	838, 1077
BstYI	RGATCY	2 cut(s)	838, 1077
Bsu36I	CCTNAGG	1 cut(s)	885
BsuRI	GGCC	1 cut(s)	599
BtsCI	GGATG	4 cut(s)	700, 793, 900, 1032
BtsIMutI	CAGTG	2 cut(s)	713, 913
Cac8I	GCNNGC	1 cut(s)	294
CaiI	CAGNNNCTG	1 cut(s)	386
CfoI	GCGC	2 cut(s)	246, 1105
Cfr13I	GGNCC	2 cut(s)	146, 1107
CviAII	CATG	3 cut(s)	526, 922, 979
DdeI	CTNAG	9 cut(s)	126, 171, 200, 350, 716, 885, 972, 1035, 1164
DpnI	GATC	5 cut(s)	276, 840, 899, 999, 1079
DpnII	GATC	5 cut(s)	274, 838, 897, 997, 1077
Eam1104I	CTCTTC	6 cut(s)	282, 384, 506, 720, 789, 872
EarI	CTCTTC	6 cut(s)	282, 384, 506, 720, 789, 872
Eco130I	CCWWGG	1 cut(s)	66
Eco31I	GGTCTC	1 cut(s)	874
Eco32I	GATATC	1 cut(s)	1185
Eco47I	GGWCC	2 cut(s)	146, 1107
Eco57I	CTGAAG	2 cut(s)	408, 432
Eco81I	CCTNAGG	1 cut(s)	885
EcoNI	CCTNNNNNAGG	1 cut(s)	93
EcoRI	GAATTC	1 cut(s)	257
EcoRII	CCWGG	1 cut(s)	94
EcoRV	GATATC	1 cut(s)	1185
EcoT14I	CCWWGG	1 cut(s)	66
EcoT22I	ATGCAT	2 cut(s)	235, 464
ErhI	CCWWGG	1 cut(s)	66
FaeI	CATG	3 cut(s)	529, 925, 982
FaqI	GGGAC	2 cut(s)	932, 938
FatI	CATG	3 cut(s)	525, 921, 978
FbaI	TGATCA	1 cut(s)	274
FblI	GTMKAC	1 cut(s)	530
Fnu4HI	GCNGC	1 cut(s)	636
FokI	GGATG	4 cut(s)	707, 800, 907, 1039
Fsp4HI	GCNGC	1 cut(s)	636
FspBI	CTAG	4 cut(s)	179, 434, 539, 1050
GlaI	GCGC	2 cut(s)	245, 1104
GluI	GCNGC	1 cut(s)	636
GsaI	CCCAGC	2 cut(s)	271, 349
GsuI	CTGGAG	4 cut(s)	78, 282, 339, 581
HaeII	RGCGCY	1 cut(s)	247
HaeIII	GGCC	1 cut(s)	599
HapII	CCGG	1 cut(s)	247
HhaI	GCGC	2 cut(s)	246, 1105
Hin1II	CATG	3 cut(s)	529, 925, 982
Hin6I	GCGC	2 cut(s)	244, 1103
HinP1I	GCGC	2 cut(s)	244, 1103
HindIII	AAGCTT	1 cut(s)	202
HinfI	GANTC	5 cut(s)	99, 175, 335, 1039, 1168
HpaII	CCGG	1 cut(s)	247
Hpy166II	GTNNAC	4 cut(s)	396, 531, 704, 1096
Hpy188I	TCNGA	3 cut(s)	256, 382, 973
Hpy188III	TCNNGA	8 cut(s)	179, 410, 508, 842, 1043, 1083, 1115, 1192
Hpy8I	GTNNAC	4 cut(s)	396, 531, 704, 1096
HpyAV	CCTTC	4 cut(s)	407, 482, 577, 589
HpyCH4III	ACNGT	4 cut(s)	400, 535, 546, 701
HpyCH4V	TGCA	8 cut(s)	44, 233, 363, 462, 553, 638, 802, 1064
HpyF10VI	GCNNNNNNNGC	2 cut(s)	41, 1160
HpyF3I	CTNAG	9 cut(s)	126, 171, 200, 350, 716, 885, 972, 1035, 1164
Hsp92II	CATG	3 cut(s)	529, 925, 982
HspAI	GCGC	2 cut(s)	244, 1103
Ksp22I	TGATCA	1 cut(s)	274
Kzo9I	GATC	5 cut(s)	274, 838, 897, 997, 1077
LguI	GCTCTTC	1 cut(s)	282
LmnI	GCTCC	4 cut(s)	40, 301, 320, 946
Lsp1109I	GCAGC	1 cut(s)	622
LweI	GCATC	4 cut(s)	468, 562, 729, 789
MaeI	CTAG	4 cut(s)	179, 434, 539, 1050
MaeIII	GTNAC	2 cut(s)	624, 826
MalI	GATC	5 cut(s)	276, 840, 899, 999, 1079
MboI	GATC	5 cut(s)	274, 838, 897, 997, 1077
MfeI	CAATTG	1 cut(s)	639
MflI	RGATCY	2 cut(s)	838, 1077
MhlI	GDGCHC	2 cut(s)	325, 978
MluCI	AATT	5 cut(s)	152, 257, 417, 639, 861
Mph1103I	ATGCAT	2 cut(s)	235, 464
MseI	TTAA	1 cut(s)	444
MslI	CAYNNNNRTG	1 cut(s)	654
MspI	CCGG	1 cut(s)	247
MspR9I	CCNGG	2 cut(s)	96, 248
MunI	CAATTG	1 cut(s)	639
Mva1269I	GAATGC	1 cut(s)	365
MvaI	CCWGG	1 cut(s)	96
MvnI	CGCG	1 cut(s)	1105
MwoI	GCNNNNNNNGC	2 cut(s)	41, 1160
NciI	CCSGG	1 cut(s)	248
NdeII	GATC	5 cut(s)	274, 838, 897, 997, 1077
NlaIII	CATG	3 cut(s)	529, 925, 982
NlaIV	GGNNCC	5 cut(s)	16, 148, 840, 1109, 1129
NsiI	ATGCAT	2 cut(s)	235, 464
NspI	RCATGY	1 cut(s)	529
PciI	ACATGT	1 cut(s)	525
PciSI	GCTCTTC	1 cut(s)	282
PctI	GAATGC	1 cut(s)	365
PfeI	GAWTC	5 cut(s)	99, 175, 335, 1039, 1168
PfoI	TCCNGGA	1 cut(s)	94
PkrI	GCNGC	1 cut(s)	637
PscI	ACATGT	1 cut(s)	525
PsiI	TTATAA	2 cut(s)	240, 734
Psp6I	CCWGG	1 cut(s)	94
PspFI	CCCAGC	2 cut(s)	267, 345
PspGI	CCWGG	1 cut(s)	94
PspN4I	GGNNCC	5 cut(s)	16, 148, 840, 1109, 1129
PspPI	GGNCC	2 cut(s)	146, 1107
PstNI	CAGNNNCTG	1 cut(s)	386
PsuI	RGATCY	2 cut(s)	838, 1077
RseI	CAYNNNNRTG	1 cut(s)	654
SapI	GCTCTTC	1 cut(s)	282
SaqAI	TTAA	1 cut(s)	444
SatI	GCNGC	1 cut(s)	636
Sau3AI	GATC	5 cut(s)	274, 838, 897, 997, 1077
Sau96I	GGNCC	2 cut(s)	146, 1107
ScrFI	CCNGG	2 cut(s)	96, 248
SduI	GDGCHC	2 cut(s)	325, 978
SfaNI	GCATC	4 cut(s)	468, 562, 729, 789
SinI	GGWCC	2 cut(s)	146, 1107
SmiMI	CAYNNNNRTG	1 cut(s)	654
SmlI	CTYRAG	3 cut(s)	506, 1081, 1190
SmoI	CTYRAG	3 cut(s)	506, 1081, 1190
SpeI	ACTAGT	1 cut(s)	1049
Sse9I	AATT	5 cut(s)	152, 257, 417, 639, 861
SsiI	CCGC	1 cut(s)	1105
SspMI	CTAG	4 cut(s)	179, 434, 539, 1050
StyD4I	CCNGG	2 cut(s)	94, 246
StyI	CCWWGG	1 cut(s)	66
TaaI	ACNGT	4 cut(s)	400, 535, 546, 701
TaqI	TCGA	2 cut(s)	723, 774
TasI	AATT	5 cut(s)	152, 257, 417, 639, 861
TfiI	GAWTC	5 cut(s)	99, 175, 335, 1039, 1168
Tru1I	TTAA	1 cut(s)	444
Tru9I	TTAA	1 cut(s)	444
TscAI	CASTG	2 cut(s)	720, 913
TseI	GCWGC	1 cut(s)	635
TspDTI	ATGAA	3 cut(s)	300, 804, 995
TspGWI	ACGGA	1 cut(s)	159
TspRI	CASTG	2 cut(s)	720, 913
VpaK11BI	GGWCC	2 cut(s)	146, 1107
XagI	CCTNNNNNAGG	1 cut(s)	93
XapI	RAATTY	2 cut(s)	257, 417
XbaI	TCTAGA	1 cut(s)	178
XceI	RCATGY	1 cut(s)	529
XmiI	GTMKAC	1 cut(s)	530
XspI	CTAG	4 cut(s)	179, 434, 539, 1050
Zsp2I	ATGCAT	2 cut(s)	235, 464

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