Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0015874

Physical Location & Seq

Genomic Coordinates Reverse (-)

13642595 .. 13646935

Gene Structure 4341 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0087800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1215 bp

ATGTCTATGGAGGAGTTGATTCCACCTTCTCCTGTGAGACCAAGAAAGGATCAGTTGCAAGCACGATCAGCTAAACGTGTGTCTGCTTTTAGTCAATATAAACGGCCTCGACCCAATACATCTCGAAATCAACAAGAAGCTCAATTGGTGACACCTACAATTGCTCAATCAGAGACACATCAGCATCATATGGCTGAAGCTAGTCCAGAGGAGCTTGTTACAACCCAATTACACGAGTCAGGTCAAATTAATGAAAGAGCTAAGAAAGGTAGGGGTGCTGCTTGTGGTATGCCTGAATGGGGAACTGGAAAAATAGCGCATATTGAATTTGATGCTAATTGGATGCCTATCAGTGAAAATGGGAAGGGGTTTAGTTCACAACTTGGAATCTTGGCCCGAGATGGACAGAAGGTTCCTCTAACCTTTACTTCTTGGACTGCCATACCAGATGATGTTTTGGATGACATTTGGAAAGATGTCAAGGATAACACGGATGTTCCGGATGAATATAAATATCATTGCTTAAAGGTTGTTGGTAGTAGATGGAGGGATTGGAAGTGTCGAGTCAAGACACAATGGTATGATAAATATGAAACTGATGAGCAGCGATTAGCATTCACTCCTAATCAGGTTGTTGCAGACCAATGGAAAATATTAGTAAAGTATTGGGGTCTTCCACATGTACAAGAAATGTGTGAAACAAATAAATCTAGCCGTGCACAAGGAGGAGGTGTCCCTCATAGGACTGGTCGAAAATCGTTTGCTAGACTACGAAAAGAGATGATGGAGAATGGAGAGAAAACAGATCGTGTGAGCATGTTTGTCAAAACAAGAGCTATGAAAACAAGGAATGATGATGGTCAACCAATTGAAGTACATGATGAGGAGGCTATATATTGCCGTCATTTGATGAGAGAAGATACATATGGGCGTGTTCGCATGTATGGAACATGTGTAACTCCATCTCAAGTGTTTGGTAACTCAAAAACTTCTGAGACTATTGAAAAGAAGACAATTGAGGAAATGGAAAAGAAATACCAAACAAAGCTAGATGATCTCAAAGAAAGCCATGAATCTCAATTGGGAGACATGAAATTAAAGTACGAAGATGTGTCGAATTGTCTCAATCTTTTGATGGCACATGTTGGTATCCAAGTAAACCAAAGTGGAAGTACAAGTGAACAGGTTGGAGAAATATCTAGGTTATTATGGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0002237 GO:0002831 GO:0002832 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005740 GO:0005743 GO:0005744 GO:0006605 GO:0006626 GO:0006810 GO:0006839 GO:0006886 GO:0006996 GO:0007005 GO:0008104 GO:0008150 GO:0009605 GO:0009607 GO:0009617 GO:0009892 GO:0009987 GO:0010033 GO:0010817 GO:0015031 GO:0015833 GO:0016020 GO:0016043 GO:0017038 GO:0019222 GO:0019866 GO:0030150 GO:0031090 GO:0031323 GO:0031324 GO:0031347 GO:0031348 GO:0031966 GO:0031967 GO:0031975 GO:0032101 GO:0032102 GO:0032879 GO:0032991 GO:0033036 GO:0033365 GO:0034613 GO:0042221 GO:0042886 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043900 GO:0043901 GO:0044422 GO:0044424 GO:0044425 GO:0044429 GO:0044444 GO:0044446 GO:0044455 GO:0044464 GO:0044743 GO:0045184 GO:0046907 GO:0048518 GO:0048519 GO:0048523 GO:0048583 GO:0048585 GO:0050789 GO:0050794 GO:0050896 GO:0051049 GO:0051050 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0051704 GO:0051707 GO:0055085 GO:0065002 GO:0065007 GO:0065008 GO:0070585 GO:0070727 GO:0071702 GO:0071705 GO:0071806 GO:0071840 GO:0072594 GO:0072655 GO:0080134 GO:0098796 GO:0098798 GO:0098800 GO:1900424 GO:1900425 GO:1902007 GO:1902009 GO:1902288 GO:1902289 GO:1990542 GO:2000012 GO:2000377 GO:2000378

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Pam16

Protein Analysis

404

Amino Acids

46.4

Weight (kDa)

7.64

Isoelectric Point (pI)

43.99

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Transposase_24	PF03004	213 - 281	1e-15	Plant transposase (Ptta/En/Spm family)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Image

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Orthologous Genes (Group: OG0015874)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G59280 AT3G59280
fragaria_vesca	FvH4_4g11640
malus_domestica	MD04G1031200.v1.1
prunus_persica	Prupe.1G182300_v2.0.a1
pyrus_communis	pycom04g02630
rosa_chinensis	RchiOBHm_Chr4g0408781
rosa_laevigata	RLG00000008630
rosa_roxburghii	Rroxscaffold_5G00353140
rosa_rugosa	Rorug04G0087800
rosa_samantha	Rh4BG149200 Rh4CG160000 Rh4DG145100
rosa_wichuraiana	Rw0G011290 Rw4G012460

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccIII	TCCGGA	1 cut(s)	499
AclWI	GGATC	1 cut(s)	57
AcsI	RAATTY	1 cut(s)	326
AcuI	CTGAAG	1 cut(s)	216
AfaI	GTAC	4 cut(s)	684, 876, 1103, 1174
AfiI	CCNNNNNNNGG	1 cut(s)	299
AflIII	ACRYGT	4 cut(s)	76, 679, 950, 1141
AgsI	TTSAA	3 cut(s)	326, 872, 1004
AloI	GAACNNNNNNTCC	2 cut(s)	396, 428
AluBI	AGCT	7 cut(s)	71, 140, 200, 214, 260, 836, 1048
AluI	AGCT	7 cut(s)	71, 140, 200, 214, 260, 836, 1048
Alw21I	GWGCWC	1 cut(s)	721
Alw26I	GTCTC	5 cut(s)	31, 167, 989, 1080, 1127
Alw44I	GTGCAC	1 cut(s)	717
AlwI	GGATC	1 cut(s)	57
Ama87I	CYCGRG	1 cut(s)	396
Aor13HI	TCCGGA	1 cut(s)	499
AoxI	GGCC	2 cut(s)	104, 393
ApaLI	GTGCAC	1 cut(s)	717
ApeKI	GCWGC	2 cut(s)	278, 604
ApoI	RAATTY	1 cut(s)	326
AseI	ATTAAT	1 cut(s)	249
AspLEI	GCGC	1 cut(s)	319
AspS9I	GGNCC	1 cut(s)	394
AsuHPI	GGTGA	1 cut(s)	160
AvaI	CYCGRG	1 cut(s)	396
BaeGI	GKGCMC	1 cut(s)	721
BauI	CACGAG	1 cut(s)	233
BbsI	GAAGAC	2 cut(s)	665, 1016
Bbv12I	GWGCWC	1 cut(s)	721
BbvI	GCAGC	2 cut(s)	265, 616
BccI	CCATC	6 cut(s)	395, 537, 778, 851, 970, 1129
BceAI	ACGGC	3 cut(s)	119, 699, 885
BciVI	GTATCC	1 cut(s)	1160
BcoDI	GTCTC	5 cut(s)	31, 167, 989, 1080, 1127
BfaI	CTAG	5 cut(s)	201, 711, 765, 1049, 1200
BfuI	GTATCC	1 cut(s)	1160
BisI	GCNGC	2 cut(s)	279, 605
BlsI	GCNGC	2 cut(s)	280, 606
BmeT110I	CYCGRG	1 cut(s)	396
BmgT120I	GGNCC	1 cut(s)	394
BmiI	GGNNCC	1 cut(s)	414
BmsI	GCATC	3 cut(s)	193, 322, 333
BpiI	GAAGAC	2 cut(s)	665, 1016
BpuEI	CTTGAG	1 cut(s)	951
BsaBI	GATNNNNATC	1 cut(s)	347
BsaI	GGTCTC	1 cut(s)	31
BsaWI	WCCGGW	1 cut(s)	499
BsaXI	ACNNNNNCTCC	2 cut(s)	717, 747
Bsc4I	CCNNNNNNNGG	1 cut(s)	299
Bse1I	ACTGG	2 cut(s)	310, 751
Bse3DI	GCAATG	1 cut(s)	517
Bse8I	GATNNNNATC	1 cut(s)	347
BseAI	TCCGGA	1 cut(s)	499
BseGI	GGATG	4 cut(s)	348, 466, 499, 508
BseJI	GATNNNNATC	1 cut(s)	347
BseLI	CCNNNNNNNGG	1 cut(s)	299
BseMI	GCAATG	1 cut(s)	517
BseMII	CTCAG	1 cut(s)	984
BseNI	ACTGG	2 cut(s)	310, 751
BseRI	GAGGAG	4 cut(s)	26, 224, 741, 899
BseSI	GKGCMC	1 cut(s)	721
BseXI	GCAGC	2 cut(s)	265, 616
BshFI	GGCC	2 cut(s)	106, 395
BsiHKAI	GWGCWC	1 cut(s)	721
BsiHKCI	CYCGRG	1 cut(s)	396
BsiSI	CCGG	1 cut(s)	500
BslFI	GGGAC	1 cut(s)	719
BslI	CCNNNNNNNGG	1 cut(s)	299
BsmAI	GTCTC	5 cut(s)	31, 167, 989, 1080, 1127
BsmFI	GGGAC	1 cut(s)	719
BsmI	GAATGC	1 cut(s)	614
BsnI	GGCC	2 cut(s)	106, 395
Bso31I	GGTCTC	1 cut(s)	31
BsoBI	CYCGRG	1 cut(s)	396
Bsp1286I	GDGCHC	1 cut(s)	721
Bsp13I	TCCGGA	1 cut(s)	499
Bsp1407I	TGTACA	1 cut(s)	682
Bsp143I	GATC	4 cut(s)	49, 65, 805, 1054
BspANI	GGCC	2 cut(s)	106, 395
BspCNI	CTCAG	1 cut(s)	985
BspEI	TCCGGA	1 cut(s)	499
BspLI	GGNNCC	1 cut(s)	414
BspPI	GGATC	1 cut(s)	57
BspTNI	GGTCTC	1 cut(s)	31
BsrDI	GCAATG	1 cut(s)	517
BsrGI	TGTACA	1 cut(s)	682
BsrI	ACTGG	2 cut(s)	310, 751
BssMI	GATC	4 cut(s)	49, 65, 805, 1054
BssSI	CACGAG	1 cut(s)	233
Bst2BI	CACGAG	1 cut(s)	233
BstAUI	TGTACA	1 cut(s)	682
BstC8I	GCNNGC	1 cut(s)	60
BstDEI	CTNAG	2 cut(s)	261, 993
BstF5I	GGATG	4 cut(s)	348, 466, 499, 508
BstHHI	GCGC	1 cut(s)	319
BstKTI	GATC	4 cut(s)	52, 68, 808, 1057
BstMAI	GTCTC	5 cut(s)	31, 167, 989, 1080, 1127
BstMBI	GATC	4 cut(s)	49, 65, 805, 1054
BstMWI	GCNNNNNNNGC	1 cut(s)	68
BstNSI	RCATGY	5 cut(s)	683, 820, 943, 954, 1145
BstSLI	GKGCMC	1 cut(s)	721
BstV1I	GCAGC	2 cut(s)	265, 616
BstV2I	GAAGAC	2 cut(s)	665, 1016
BsuI	GTATCC	1 cut(s)	1160
BsuRI	GGCC	2 cut(s)	106, 395
BtsCI	GGATG	4 cut(s)	348, 466, 499, 508
BtsIMutI	CAGTG	1 cut(s)	358
Cac8I	GCNNGC	1 cut(s)	60
CfoI	GCGC	1 cut(s)	319
Cfr13I	GGNCC	1 cut(s)	394
Csp6I	GTAC	4 cut(s)	683, 875, 1102, 1173
CviAII	CATG	8 cut(s)	680, 817, 878, 940, 951, 1070, 1090, 1142
CviQI	GTAC	4 cut(s)	683, 875, 1102, 1173
DdeI	CTNAG	2 cut(s)	261, 993
DpnI	GATC	4 cut(s)	51, 67, 807, 1056
DpnII	GATC	4 cut(s)	49, 65, 805, 1054
Eco31I	GGTCTC	1 cut(s)	31
Eco57I	CTGAAG	1 cut(s)	216
Eco88I	CYCGRG	1 cut(s)	396
FaeI	CATG	8 cut(s)	683, 820, 881, 943, 954, 1073, 1093, 1145
FaqI	GGGAC	1 cut(s)	719
FatI	CATG	8 cut(s)	679, 816, 877, 939, 950, 1069, 1089, 1141
FauNDI	CATATG	2 cut(s)	189, 925
Fnu4HI	GCNGC	2 cut(s)	279, 605
FokI	GGATG	4 cut(s)	355, 473, 506, 515
Fsp4HI	GCNGC	2 cut(s)	279, 605
FspBI	CTAG	5 cut(s)	201, 711, 765, 1049, 1200
GlaI	GCGC	1 cut(s)	318
GluI	GCNGC	2 cut(s)	279, 605
HaeIII	GGCC	2 cut(s)	106, 395
HapII	CCGG	1 cut(s)	500
HhaI	GCGC	1 cut(s)	319
Hin1II	CATG	8 cut(s)	683, 820, 881, 943, 954, 1073, 1093, 1145
Hin6I	GCGC	1 cut(s)	317
HinP1I	GCGC	1 cut(s)	317
HincII	GTYRAC	1 cut(s)	863
HindII	GTYRAC	1 cut(s)	863
HinfI	GANTC	5 cut(s)	19, 236, 387, 564, 1073
HpaII	CCGG	1 cut(s)	500
HphI	GGTGA	1 cut(s)	160
Hpy166II	GTNNAC	5 cut(s)	377, 719, 863, 1159, 1181
Hpy188I	TCNGA	2 cut(s)	172, 994
Hpy188III	TCNNGA	4 cut(s)	123, 206, 500, 568
Hpy8I	GTNNAC	5 cut(s)	377, 719, 863, 1159, 1181
HpyAV	CCTTC	3 cut(s)	36, 358, 403
HpyCH4IV	ACGT	1 cut(s)	76
HpyCH4V	TGCA	3 cut(s)	58, 638, 719
HpyF10VI	GCNNNNNNNGC	1 cut(s)	68
HpyF3I	CTNAG	2 cut(s)	261, 993
HpySE526I	ACGT	1 cut(s)	76
Hsp92II	CATG	8 cut(s)	683, 820, 881, 943, 954, 1073, 1093, 1145
HspAI	GCGC	1 cut(s)	317
Kpn2I	TCCGGA	1 cut(s)	499
Kzo9I	GATC	4 cut(s)	49, 65, 805, 1054
LmnI	GCTCC	1 cut(s)	211
Lsp1109I	GCAGC	2 cut(s)	265, 616
LweI	GCATC	3 cut(s)	193, 322, 333
MaeI	CTAG	5 cut(s)	201, 711, 765, 1049, 1200
MaeII	ACGT	1 cut(s)	76
MaeIII	GTNAC	4 cut(s)	148, 217, 955, 977
MalI	GATC	4 cut(s)	51, 67, 807, 1056
MboI	GATC	4 cut(s)	49, 65, 805, 1054
MboII	GAAGA	4 cut(s)	665, 929, 1021, 1118
MfeI	CAATTG	5 cut(s)	143, 159, 867, 1014, 1079
MhlI	GDGCHC	1 cut(s)	721
MlyI	GAGTC	2 cut(s)	245, 573
MmeI	TCCRAC	1 cut(s)	1168
MroI	TCCGGA	1 cut(s)	499
MseI	TTAA	3 cut(s)	249, 524, 1097
MspI	CCGG	1 cut(s)	500
MunI	CAATTG	5 cut(s)	143, 159, 867, 1014, 1079
Mva1269I	GAATGC	1 cut(s)	614
MwoI	GCNNNNNNNGC	1 cut(s)	68
NdeI	CATATG	2 cut(s)	189, 925
NdeII	GATC	4 cut(s)	49, 65, 805, 1054
NlaIII	CATG	8 cut(s)	683, 820, 881, 943, 954, 1073, 1093, 1145
NlaIV	GGNNCC	1 cut(s)	414
NmuCI	GTSAC	1 cut(s)	148
NspI	RCATGY	5 cut(s)	683, 820, 943, 954, 1145
PciI	ACATGT	3 cut(s)	679, 950, 1141
PctI	GAATGC	1 cut(s)	614
PfeI	GAWTC	3 cut(s)	19, 387, 1073
PkrI	GCNGC	2 cut(s)	280, 606
PleI	GAGTC	2 cut(s)	244, 572
PpsI	GAGTC	2 cut(s)	244, 572
PscI	ACATGT	3 cut(s)	679, 950, 1141
PshBI	ATTAAT	1 cut(s)	249
PspN4I	GGNNCC	1 cut(s)	414
PspPI	GGNCC	1 cut(s)	394
RsaI	GTAC	4 cut(s)	684, 876, 1103, 1174
RsaNI	GTAC	4 cut(s)	683, 875, 1102, 1173
SaqAI	TTAA	3 cut(s)	249, 524, 1097
SatI	GCNGC	2 cut(s)	279, 605
Sau3AI	GATC	4 cut(s)	49, 65, 805, 1054
Sau96I	GGNCC	1 cut(s)	394
SchI	GAGTC	2 cut(s)	245, 573
SduI	GDGCHC	1 cut(s)	721
SfaNI	GCATC	3 cut(s)	193, 322, 333
SmlI	CTYRAG	1 cut(s)	966
SmoI	CTYRAG	1 cut(s)	966
SspI	AATATT	1 cut(s)	654
SspMI	CTAG	5 cut(s)	201, 711, 765, 1049, 1200
TaiI	ACGT	1 cut(s)	79
TaqI	TCGA	5 cut(s)	109, 124, 562, 751, 1115
TatI	WGTACW	3 cut(s)	682, 874, 1172
TfiI	GAWTC	3 cut(s)	19, 387, 1073
Tru1I	TTAA	3 cut(s)	249, 524, 1097
Tru9I	TTAA	3 cut(s)	249, 524, 1097
TscAI	CASTG	1 cut(s)	358
TseFI	GTSAC	1 cut(s)	148
TseI	GCWGC	2 cut(s)	278, 604
Tsp45I	GTSAC	1 cut(s)	148
TspDTI	ATGAA	6 cut(s)	267, 519, 606, 854, 1086, 1106
TspGWI	ACGGA	1 cut(s)	506
TspRI	CASTG	1 cut(s)	358
VneI	GTGCAC	1 cut(s)	717
VspI	ATTAAT	1 cut(s)	249
XapI	RAATTY	1 cut(s)	326
XceI	RCATGY	5 cut(s)	683, 820, 943, 954, 1145
XspI	CTAG	5 cut(s)	201, 711, 765, 1049, 1200

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