Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0019784

Physical Location & Seq

Genomic Coordinates Reverse (-)

54920854 .. 54922026

Gene Structure 1173 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG323300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1173 bp

ATGGAAAATGATGATAATGAGGATGATCCCCTCTCTGATGAGCACTATGGCTATCCCAAGGCAGAGTCTGACAAATGGGTTTCTTGCATTAGAGTTCTTGACCCAAAGACAGCAACTACAACTTGTTTGCTGGAGCTCGACAACGAAGCTGCAATCAGTGTATGTACAGTGAATTTTCATGATAACGCCGGCCTGGTTGGGGCAGCTCCTCCGAAGGAGTATGGTACGCTTTTGGCTGTTGGAACCGCAAAGGGACTTCAATTTTGGCCCAAGAAAAGTATAACCGGAGGATTTATTCATATATATCGATTTCTTGATGATGGAAAGTCCCTTGAACTTTTGCACAAAACAGAAGTGGATGGTGTTCCTCTTGCTTTATGTAAGTTTCAGGGAAGGTTACTAGCAGGGATAGGATCAGTGCTCAGACTATATGATTTGGGGAGAAAAAGATTGCTTAGGAAATGTGAGAATAAGCTGTTTCCCAACAATATTGTATCCATTCACACCTATCGTGATCGAATATATGTAGGTGACATTCAAGAGTCATTCCACTACTGCAAGTATAGGCGGGATGAGAATCAGCTGTATATATTTGCTGATGATCATGTTCCAAGATGGCTGACAGCATCGTTCCATATTGATTTTGACACGATGGCAGGTGCGGACAAGTTTGGGAATGTGTACTTTGTGCGGTTACCACAGGATGTTTCAGATGGGATAGAAGAAGATCCAACAGGTGGGAGGATAAAATGGAAGCAGGGGAAGTTGAATGGTGCTCCAAACAAAGTGGAGGAGATCGTGCAGTTTCATGTTGGCGATGTAGTCAGCTGCTTGCAGAAGGCATCTCTCATTCCAGGTGGTGGTGAGTGCGTCATTTACGGGACAGTGATGGGTAGCTTGGGTGCATTGTTTGCATTCACTTCCCGTGATGACGTTGTCTTCTTTTCTCACCTGGAGATGTATATGAGGCAGGAACATCCACCCTTGTGTGGGAGAGATCACATGGCTTATAGATCAGCTTATTTCCCTGTTAAGGATGTGATTGATGGAGATCTTTGCGAGCAGTACCCAACACTGCCTATGGATGTACAGAGGAAAATTGCAGTCGAGTTGGATAGGACTCCTGGAGAGATACTAAAGAAACTTGAGGAAATTCGAAATAAGATCATTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000375 GO:0000377 GO:0000398 GO:0003006 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005684 GO:0005689 GO:0005730 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0008380 GO:0009555 GO:0009791 GO:0009846 GO:0009856 GO:0009892 GO:0009894 GO:0009895 GO:0009908 GO:0009987 GO:0010467 GO:0010605 GO:0016070 GO:0016071 GO:0019222 GO:0022414 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032991 GO:0034641 GO:0035670 GO:0042176 GO:0042177 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0044706 GO:0044877 GO:0046483 GO:0048229 GO:0048367 GO:0048437 GO:0048438 GO:0048440 GO:0048467 GO:0048481 GO:0048519 GO:0048608 GO:0048731 GO:0048827 GO:0048856 GO:0050789 GO:0051171 GO:0051172 GO:0051246 GO:0051248 GO:0051704 GO:0055046 GO:0060255 GO:0061458 GO:0065007 GO:0070013 GO:0071005 GO:0071011 GO:0071013 GO:0071704 GO:0080090 GO:0090304 GO:0090567 GO:0097159 GO:0099402 GO:1901360 GO:1901363 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

CPSF_A MMS1_N

Protein Analysis

390

Amino Acids

44.0

Weight (kDa)

5.59

Isoelectric Point (pI)

39.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CPSF_A	PF03178	28 - 356	2e-92	CPSF A subunit region

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: OG0019784)

Species	Orthologous Gene IDs
malus_domestica	MD07G1188800.v1.1
rosa_multiflora	Rmu_sc0000831.1_g000022 Rmu_sc0007491.1_g000001
rosa_rugosa	Rorug03G0255000
rosa_samantha	Rh1BG291600 Rh1CG308200 Rh1DG323300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	647
Acc36I	ACCTGC	1 cut(s)	647
AccB7I	CCANNNNNTGG	2 cut(s)	737, 860
AciI	CCGC	4 cut(s)	246, 568, 662, 691
AclWI	GGATC	3 cut(s)	20, 421, 722
AcsI	RAATTY	2 cut(s)	172, 1152
AfaI	GTAC	5 cut(s)	166, 226, 683, 1067, 1089
AfiI	CCNNNNNNNGG	6 cut(s)	199, 737, 860, 989, 990, 1033
AgsI	TTSAA	4 cut(s)	260, 335, 539, 769
AjnI	CCWGG	4 cut(s)	192, 853, 951, 1123
AleI	CACNNNNGTG	1 cut(s)	985
AluBI	AGCT	8 cut(s)	136, 149, 206, 475, 583, 828, 897, 1019
AluI	AGCT	8 cut(s)	136, 149, 206, 475, 583, 828, 897, 1019
Alw21I	GWGCWC	4 cut(s)	45, 138, 423, 778
AlwI	GGATC	3 cut(s)	20, 421, 722
AlwNI	CAGNNNCTG	1 cut(s)	68
AoxI	GGCC	2 cut(s)	190, 266
ApeKI	GCWGC	3 cut(s)	149, 203, 828
ApoI	RAATTY	2 cut(s)	172, 1152
ArsI	GACNNNNNNTTYG	2 cut(s)	246, 278
AspS9I	GGNCC	1 cut(s)	267
AsuHPI	GGTGA	3 cut(s)	542, 875, 941
AsuII	TTCGAA	1 cut(s)	1156
BanII	GRGCYC	1 cut(s)	138
BbsI	GAAGAC	1 cut(s)	931
Bbv12I	GWGCWC	4 cut(s)	45, 138, 423, 778
BbvI	GCAGC	3 cut(s)	136, 215, 815
BccI	CCATC	7 cut(s)	314, 353, 609, 646, 707, 883, 1040
BciT130I	CCWGG	4 cut(s)	194, 855, 953, 1125
BciVI	GTATCC	1 cut(s)	505
BclI	TGATCA	1 cut(s)	601
BfaI	CTAG	1 cut(s)	401
BfuAI	ACCTGC	1 cut(s)	647
BfuI	GTATCC	1 cut(s)	505
BglII	AGATCT	1 cut(s)	1051
BisI	GCNGC	3 cut(s)	150, 204, 829
BlsI	GCNGC	3 cut(s)	151, 205, 830
Bme1390I	CCNGG	4 cut(s)	194, 855, 953, 1125
BmgT120I	GGNCC	1 cut(s)	267
BmiI	GGNNCC	1 cut(s)	244
BmrFI	CCNGG	4 cut(s)	194, 855, 953, 1125
BmsI	GCATC	2 cut(s)	635, 851
BpiI	GAAGAC	1 cut(s)	931
BpmI	CTGGAG	3 cut(s)	152, 974, 1146
Bpu10I	CCTNAGC	1 cut(s)	455
Bpu14I	TTCGAA	1 cut(s)	1156
BpuEI	CTTGAG	1 cut(s)	1166
Bsa29I	ATCGAT	1 cut(s)	307
BsaBI	GATNNNNATC	2 cut(s)	576, 1050
BsaJI	CCNNGG	1 cut(s)	57
BsaWI	WCCGGW	1 cut(s)	284
Bsc4I	CCNNNNNNNGG	6 cut(s)	199, 737, 860, 989, 990, 1033
Bse118I	RCCGGY	1 cut(s)	188
Bse8I	GATNNNNATC	2 cut(s)	576, 1050
BseBI	CCWGG	4 cut(s)	194, 855, 953, 1125
BseCI	ATCGAT	1 cut(s)	307
BseDI	CCNNGG	1 cut(s)	57
BseGI	GGATG	7 cut(s)	28, 364, 577, 709, 976, 1042, 1090
BseJI	GATNNNNATC	2 cut(s)	576, 1050
BseLI	CCNNNNNNNGG	6 cut(s)	199, 737, 860, 989, 990, 1033
BseMII	CTCAG	1 cut(s)	436
BseRI	GAGGAG	2 cut(s)	198, 806
BseXI	GCAGC	3 cut(s)	136, 215, 815
BsgI	GTGCAG	1 cut(s)	821
BshFI	GGCC	2 cut(s)	192, 268
BshVI	ATCGAT	1 cut(s)	307
BsiHKAI	GWGCWC	4 cut(s)	45, 138, 423, 778
BsiSI	CCGG	2 cut(s)	189, 285
BslFI	GGGAC	3 cut(s)	267, 313, 895
BslI	CCNNNNNNNGG	6 cut(s)	199, 737, 860, 989, 990, 1033
BsmFI	GGGAC	3 cut(s)	267, 313, 895
BsmI	GAATGC	1 cut(s)	914
BsnI	GGCC	2 cut(s)	192, 268
Bsp119I	TTCGAA	1 cut(s)	1156
Bsp1286I	GDGCHC	4 cut(s)	45, 138, 423, 778
Bsp1407I	TGTACA	2 cut(s)	164, 1087
BspACI	CCGC	4 cut(s)	246, 568, 662, 691
BspANI	GGCC	2 cut(s)	192, 268
BspCNI	CTCAG	1 cut(s)	435
BspDI	ATCGAT	1 cut(s)	307
BspHI	TCATGA	1 cut(s)	178
BspLI	GGNNCC	1 cut(s)	244
BspMI	ACCTGC	1 cut(s)	647
BspPI	GGATC	3 cut(s)	20, 421, 722
BspT104I	TTCGAA	1 cut(s)	1156
BsrFI	RCCGGY	1 cut(s)	188
BsrGI	TGTACA	2 cut(s)	164, 1087
BssAI	RCCGGY	1 cut(s)	188
BssECI	CCNNGG	1 cut(s)	57
BssT1I	CCWWGG	1 cut(s)	57
Bst2UI	CCWGG	4 cut(s)	194, 855, 953, 1125
Bst4CI	ACNGT	2 cut(s)	169, 886
BstAPI	GCANNNNNTGC	1 cut(s)	911
BstAUI	TGTACA	2 cut(s)	164, 1087
BstBI	TTCGAA	1 cut(s)	1156
BstC8I	GCNNGC	3 cut(s)	190, 833, 1061
BstDEI	CTNAG	2 cut(s)	422, 455
BstEII	GGTNACC	1 cut(s)	693
BstF5I	GGATG	7 cut(s)	28, 364, 577, 709, 976, 1042, 1090
BstMWI	GCNNNNNNNGC	1 cut(s)	911
BstNI	CCWGG	4 cut(s)	194, 855, 953, 1125
BstPI	GGTNACC	1 cut(s)	693
BstSCI	CCNGG	4 cut(s)	192, 853, 951, 1123
BstV1I	GCAGC	3 cut(s)	136, 215, 815
BstV2I	GAAGAC	1 cut(s)	931
BstX2I	RGATCY	2 cut(s)	727, 1051
BstYI	RGATCY	2 cut(s)	727, 1051
Bsu15I	ATCGAT	1 cut(s)	307
BsuI	GTATCC	1 cut(s)	505
BsuRI	GGCC	2 cut(s)	192, 268
BsuTUI	ATCGAT	1 cut(s)	307
BtgZI	GCGATG	1 cut(s)	831
BtsCI	GGATG	7 cut(s)	28, 364, 577, 709, 976, 1042, 1090
BtsI	GCAGTG	1 cut(s)	1073
BtsIMutI	CAGTG	5 cut(s)	163, 174, 423, 891, 1073
BveI	ACCTGC	1 cut(s)	647
Cac8I	GCNNGC	3 cut(s)	190, 833, 1061
CaiI	CAGNNNCTG	1 cut(s)	68
CciI	TCATGA	1 cut(s)	178
Cfr10I	RCCGGY	1 cut(s)	188
Cfr13I	GGNCC	1 cut(s)	267
ClaI	ATCGAT	1 cut(s)	307
CseI	GACGC	1 cut(s)	859
Csp6I	GTAC	5 cut(s)	165, 225, 682, 1066, 1088
CspCI	CAANNNNNGTGG	2 cut(s)	768, 803
CviAII	CATG	4 cut(s)	179, 605, 809, 1003
CviQI	GTAC	5 cut(s)	165, 225, 682, 1066, 1088
DdeI	CTNAG	2 cut(s)	422, 455
Ecl136II	GAGCTC	1 cut(s)	136
Eco130I	CCWWGG	1 cut(s)	57
Eco24I	GRGCYC	1 cut(s)	138
Eco53kI	GAGCTC	1 cut(s)	136
Eco91I	GGTNACC	1 cut(s)	693
EcoICRI	GAGCTC	1 cut(s)	136
EcoO65I	GGTNACC	1 cut(s)	693
EcoRII	CCWGG	4 cut(s)	192, 853, 951, 1123
EcoT14I	CCWWGG	1 cut(s)	57
EcoT38I	GRGCYC	1 cut(s)	138
ErhI	CCWWGG	1 cut(s)	57
FaeI	CATG	4 cut(s)	182, 608, 812, 1006
FaqI	GGGAC	3 cut(s)	267, 313, 895
FatI	CATG	4 cut(s)	178, 604, 808, 1002
FauI	CCCGC	1 cut(s)	561
FbaI	TGATCA	1 cut(s)	601
Fnu4HI	GCNGC	3 cut(s)	150, 204, 829
FokI	GGATG	7 cut(s)	35, 371, 584, 716, 963, 1049, 1097
FriOI	GRGCYC	1 cut(s)	138
Fsp4HI	GCNGC	3 cut(s)	150, 204, 829
FspBI	CTAG	1 cut(s)	401
GluI	GCNGC	3 cut(s)	150, 204, 829
GsuI	CTGGAG	3 cut(s)	152, 974, 1146
HaeIII	GGCC	2 cut(s)	192, 268
HapII	CCGG	2 cut(s)	189, 285
HgaI	GACGC	1 cut(s)	859
Hin1II	CATG	4 cut(s)	182, 608, 812, 1006
HinfI	GANTC	4 cut(s)	65, 542, 577, 1120
HpaII	CCGG	2 cut(s)	189, 285
HphI	GGTGA	3 cut(s)	542, 875, 941
Hpy166II	GTNNAC	1 cut(s)	682
Hpy188I	TCNGA	5 cut(s)	37, 70, 213, 425, 712
Hpy188III	TCNNGA	5 cut(s)	98, 179, 314, 512, 539
Hpy8I	GTNNAC	1 cut(s)	682
HpyAV	CCTTC	3 cut(s)	208, 387, 832
HpyCH4III	ACNGT	2 cut(s)	169, 886
HpyCH4IV	ACGT	1 cut(s)	933
HpyCH4V	TGCA	9 cut(s)	87, 152, 343, 558, 802, 835, 905, 914, 1103
HpyF10VI	GCNNNNNNNGC	1 cut(s)	911
HpyF3I	CTNAG	2 cut(s)	422, 455
HpySE526I	ACGT	1 cut(s)	933
Hsp92II	CATG	4 cut(s)	182, 608, 812, 1006
KroI	GCCGGC	1 cut(s)	188
KroNI	GCCGGC	1 cut(s)	190
Ksp22I	TGATCA	1 cut(s)	601
LmnI	GCTCC	3 cut(s)	133, 211, 781
Lsp1109I	GCAGC	3 cut(s)	136, 215, 815
LweI	GCATC	2 cut(s)	635, 851
MaeI	CTAG	1 cut(s)	401
MaeII	ACGT	1 cut(s)	933
MaeIII	GTNAC	3 cut(s)	396, 530, 693
MboII	GAAGA	3 cut(s)	734, 737, 931
MflI	RGATCY	2 cut(s)	727, 1051
MhlI	GDGCHC	4 cut(s)	45, 138, 423, 778
MluCI	AATT	4 cut(s)	172, 260, 1098, 1152
MlyI	GAGTC	3 cut(s)	74, 551, 1114
MmeI	TCCRAC	3 cut(s)	220, 755, 1092
MroNI	GCCGGC	1 cut(s)	188
MseI	TTAA	2 cut(s)	1032, 1171
MslI	CAYNNNNRTG	1 cut(s)	985
MspA1I	CMGCKG	2 cut(s)	583, 828
MspI	CCGG	2 cut(s)	189, 285
MspR9I	CCNGG	4 cut(s)	194, 855, 953, 1125
Mva1269I	GAATGC	1 cut(s)	914
MvaI	CCWGG	4 cut(s)	194, 855, 953, 1125
MwoI	GCNNNNNNNGC	1 cut(s)	911
NaeI	GCCGGC	1 cut(s)	190
NgoMIV	GCCGGC	1 cut(s)	188
NlaIII	CATG	4 cut(s)	182, 608, 812, 1006
NlaIV	GGNNCC	1 cut(s)	244
NmuCI	GTSAC	1 cut(s)	530
NspV	TTCGAA	1 cut(s)	1156
OliI	CACNNNNGTG	1 cut(s)	985
PagI	TCATGA	1 cut(s)	178
PaqCI	CACCTGC	1 cut(s)	647
PctI	GAATGC	1 cut(s)	914
PdiI	GCCGGC	1 cut(s)	190
PfeI	GAWTC	1 cut(s)	577
PflFI	GACNNNGTC	1 cut(s)	935
PflMI	CCANNNNNTGG	2 cut(s)	737, 860
PfoI	TCCNGGA	1 cut(s)	1123
PkrI	GCNGC	3 cut(s)	151, 205, 830
PleI	GAGTC	3 cut(s)	73, 550, 1114
PpsI	GAGTC	3 cut(s)	73, 550, 1114
Psp124BI	GAGCTC	1 cut(s)	138
Psp6I	CCWGG	4 cut(s)	192, 853, 951, 1123
PspEI	GGTNACC	1 cut(s)	693
PspGI	CCWGG	4 cut(s)	192, 853, 951, 1123
PspN4I	GGNNCC	1 cut(s)	244
PspPI	GGNCC	1 cut(s)	267
PstNI	CAGNNNCTG	1 cut(s)	68
PsuI	RGATCY	2 cut(s)	727, 1051
PsyI	GACNNNGTC	1 cut(s)	935
PvuII	CAGCTG	2 cut(s)	583, 828
RsaI	GTAC	5 cut(s)	166, 226, 683, 1067, 1089
RsaNI	GTAC	5 cut(s)	165, 225, 682, 1066, 1088
RseI	CAYNNNNRTG	1 cut(s)	985
SacI	GAGCTC	1 cut(s)	138
SaqAI	TTAA	2 cut(s)	1032, 1171
SatI	GCNGC	3 cut(s)	150, 204, 829
Sau96I	GGNCC	1 cut(s)	267
SchI	GAGTC	3 cut(s)	74, 551, 1114
ScrFI	CCNGG	4 cut(s)	194, 855, 953, 1125
SduI	GDGCHC	4 cut(s)	45, 138, 423, 778
SfaNI	GCATC	2 cut(s)	635, 851
SfuI	TTCGAA	1 cut(s)	1156
SmiMI	CAYNNNNRTG	1 cut(s)	985
SmlI	CTYRAG	1 cut(s)	1145
SmoI	CTYRAG	1 cut(s)	1145
Sse9I	AATT	4 cut(s)	172, 260, 1098, 1152
SsiI	CCGC	4 cut(s)	246, 568, 662, 691
SspI	AATATT	1 cut(s)	490
SspMI	CTAG	1 cut(s)	401
SstI	GAGCTC	1 cut(s)	138
StyD4I	CCNGG	4 cut(s)	192, 853, 951, 1123
StyI	CCWWGG	1 cut(s)	57
TaaI	ACNGT	2 cut(s)	169, 886
TaiI	ACGT	1 cut(s)	936
TaqI	TCGA	5 cut(s)	138, 307, 517, 1107, 1156
TasI	AATT	4 cut(s)	172, 260, 1098, 1152
TatI	WGTACW	3 cut(s)	164, 681, 1087
TfiI	GAWTC	1 cut(s)	577
Tru1I	TTAA	2 cut(s)	1032, 1171
Tru9I	TTAA	2 cut(s)	1032, 1171
TscAI	CASTG	5 cut(s)	163, 174, 423, 891, 1080
TseFI	GTSAC	1 cut(s)	530
TseI	GCWGC	3 cut(s)	149, 203, 828
Tsp45I	GTSAC	1 cut(s)	530
TspDTI	ATGAA	3 cut(s)	167, 287, 797
TspRI	CASTG	5 cut(s)	163, 174, 423, 891, 1080
Tth111I	GACNNNGTC	1 cut(s)	935
Van91I	CCANNNNNTGG	2 cut(s)	737, 860
XapI	RAATTY	2 cut(s)	172, 1152
XspI	CTAG	1 cut(s)	401

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