Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0000154

Physical Location & Seq

Genomic Coordinates Forward (+)

60300683 .. 60301594

Gene Structure 912 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG385900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 912 bp

ATGGACACCGTAAGAATGATTGTGGCACTTGCAGCATGCAGAGGGTGGAACATTCTTCAACTAGATGTCAAATCTGCATTTCTCCATGGTGAACTCAACGAGGACGTGTACATTGAGCAACCGAAGGGGTATGTAAAGAAGGGAAGTGAGCACAAAGTTTACAAGTTGCACAAAGCTCTTTACGGCTTAAAACAAGCTCCAAGAGCTTGGTTTAGTCGAATTGAGTCTCATTTCATTGAAGAAGGTTTCAAGAAGTGTCCAAATGAGCAAACATTGTTCACTAAGAGAAGCAGTGAAAGTAAACTGCTGATCGTTAGCATATACGTGGATGACTTGATTTACACCAGCGAGGATGAAGGTATGATGGTTGACTTCAAGAATTCCATGATGAAAGCCTTTGATATGACTGACTTAGGGAAGATGAGGTTCTTCCTTGGAATTGAAGTGTTGCAGAAACCAAATGGGATTTTCGTGTGTCAAAGGAAATATGCTAATGAAGTGTTGAAGCGGTTTGGAATGTCAGAAAGCACACGTGTAAGTAGTCCAATTGTTCCGGGTTTCAAAATAAGTAGGGATGTTAATGGAATTGCTGTGGATGACACCTACTACAAGAAAATTGTTGGAAGCTTAATGTATCTTACAGCTACACGTCCAGACATCATGTTTAGTGTGAGCTTAATCAGCAGGTACATGTCAAAACCCACTAAATTACATTTGCAAGCTGCTAAGAGAATTCTGCGTTATTTGAAGGGGACTACTAGTCATGGTATTTTCTACAAGAAGGGAGGGGAAGAAGATTTGCTTGCTTTCACAGACTCAGATTATGCTGGTGATGAAGAAGATTCCAAAAGCACATCAGGTTATGTTTTCTTATTCAGTTCAGGTGCGGTGTCTTGGATGTCGAAAAAATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000325 GO:0003674 GO:0003824 GO:0005215 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005773 GO:0005774 GO:0005911 GO:0006810 GO:0008150 GO:0009506 GO:0009605 GO:0009607 GO:0009624 GO:0015399 GO:0015405 GO:0016020 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0022804 GO:0022857 GO:0030054 GO:0031090 GO:0042623 GO:0042626 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043492 GO:0044422 GO:0044424 GO:0044437 GO:0044444 GO:0044446 GO:0044464 GO:0050896 GO:0051179 GO:0051234 GO:0051704 GO:0051707 GO:0055044 GO:0055085 GO:0098588 GO:0098805

KEGG Pathways

Metabolic & Signaling

ko01523 ko01524 ko02010 ko04071 ko04976 ko04977 ko05206 map01523 map01524 map02010 map04071 map04976 map04977 map05206

Pfam Domains

Protein Families

ABC_membrane ABC_tran

Protein Analysis

303

Amino Acids

34.5

Weight (kDa)

9.12

Isoelectric Point (pI)

46.79

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_2	PF07727	2 - 184	4.1e-59	Reverse transcriptase (RNA-dependent DNA polymerase)

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)

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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0000154)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g02351 FvH4_1g18383 FvH4_1g18442 FvH4_1g19622 FvH4_2g08148 FvH4_2g16312 FvH4_3g06912 FvH4_3g10761 FvH4_3g12332 FvH4_3g12332 FvH4_3g14182 FvH4_3g21021 FvH4_3g35231 FvH4_3g45132 FvH4_4g08663 FvH4_4g30271 FvH4_4g30272 FvH4_4g30901 FvH4_4g30902 FvH4_5g12471 FvH4_5g22951 FvH4_6g07331 FvH4_6g07332 FvH4_6g41872 FvH4_6g43841 FvH4_6g43842 FvH4_6g48811 FvH4_7g03911 FvH4_7g13272 FvH4_7g21181 FvH4_7g29024 FvH4_7g33702
malus_domestica	MD00G1037700.v1.1 MD01G1037300.v1.1 MD01G1096700.v1.1 MD01G1101100.v1.1 MD01G1129400.v1.1 MD02G1295200.v1.1 MD03G1131300.v1.1 MD04G1072100.v1.1 MD05G1104800.v1.1 MD07G1028600.v1.1 MD07G1274600.v1.1 MD08G1027200.v1.1 MD09G1044400.v1.1 MD09G1044700.v1.1 MD09G1129500.v1.1 MD09G1238700.v1.1 MD10G1011700.v1.1 MD10G1071400.v1.1 MD10G1108600.v1.1 MD10G1162100.v1.1 MD10G1162300.v1.1 MD11G1016700.v1.1 MD11G1074500.v1.1 MD15G1058600.v1.1 MD15G1383000.v1.1 MD16G1192200.v1.1 MD17G1077400.v1.1 MD17G1077500.v1.1
pyrus_communis	pycom01g03520 pycom02g00350 pycom03g09910 pycom03g13960 pycom03g13970 pycom03g19180 pycom04g08410 pycom04g10140 pycom06g03750 pycom07g09240 pycom07g09260 pycom08g20130 pycom09g11020 pycom10g12690 pycom14g04140 pycom14g05710 pycom16g06380 pycom17g05500 pycom808g00140
rosa_chinensis	RchiOBHm_Chr1g0316211 RchiOBHm_Chr1g0319901 RchiOBHm_Chr1g0321811 RchiOBHm_Chr1g0329831 RchiOBHm_Chr1g0330721 RchiOBHm_Chr1g0330731 RchiOBHm_Chr1g0368461 RchiOBHm_Chr1g0381111 RchiOBHm_Chr2g0154461 RchiOBHm_Chr2g0164521 RchiOBHm_Chr2g0175301 RchiOBHm_Chr3g0451301 RchiOBHm_Chr3g0453691 RchiOBHm_Chr3g0470191 RchiOBHm_Chr3g0486561 RchiOBHm_Chr4g0409141 RchiOBHm_Chr4g0409151 RchiOBHm_Chr4g0421231 RchiOBHm_Chr4g0440701 RchiOBHm_Chr5g0018211 RchiOBHm_Chr5g0023611 RchiOBHm_Chr5g0045971 RchiOBHm_Chr5g0056061 RchiOBHm_Chr5g0063381 RchiOBHm_Chr5g0064011 RchiOBHm_Chr5g0064021 RchiOBHm_Chr5g0064041 RchiOBHm_Chr6g0259681 RchiOBHm_Chr6g0259691 RchiOBHm_Chr6g0296531 RchiOBHm_Chr7g0186421 RchiOBHm_Chr7g0192321 RchiOBHm_Chr7g0198271 RchiOBHm_Chr7g0198951 RchiOBHm_Chr7g0237911
rosa_laevigata	RLG00000026946
rosa_roxburghii	Rroxscaffold_1G00014460 Rroxscaffold_1G00014610 Rroxscaffold_1G00028950 Rroxscaffold_1G00052630 Rroxscaffold_2G00104760 Rroxscaffold_2G00138900 Rroxscaffold_2G00145210 Rroxscaffold_3G00220110 Rroxscaffold_4G00297860 Rroxscaffold_4G00321570 Rroxscaffold_5G00332990 Rroxscaffold_5G00360870
rosa_samantha	Rh1AG319600 Rh1CG299100 Rh4DG385900 Rh5BG032200
rosa_wichuraiana	Rw0G002380 Rw0G003050 Rw0G003940 Rw1G002730 Rw1G003260 Rw1G005490 Rw1G016140 Rw1G016150 Rw1G017930 Rw1G017940 Rw1G022540 Rw1G022630 Rw1G031080 Rw1G039680 Rw2G003340 Rw2G003720 Rw2G006640 Rw2G020790 Rw2G025650 Rw2G028430 Rw2G029550 Rw2G034920 Rw2G040820 Rw2G048420 Rw2G048570 Rw3G010040 Rw3G022790 Rw3G023350 Rw3G025140 Rw3G028810 Rw4G000680 Rw4G003350 Rw4G004640 Rw4G026650 Rw4G034500 Rw5G008490 Rw5G020650 Rw5G023000 Rw5G033610 Rw5G037280 Rw5G046620 Rw5G050250 Rw6G001410 Rw6G005690 Rw6G005820 Rw6G010920 Rw6G022790 Rw6G023940 Rw6G026290 Rw6G028610 Rw6G031260 Rw6G036550 Rw6G036560 Rw7G015300 Rw7G017250 Rw7G018150 Rw7G031960 Rw7G036490

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	675
AciI	CCGC	2 cut(s)	508, 887
AcsI	RAATTY	2 cut(s)	379, 732
AcvI	CACGTG	1 cut(s)	533
AfaI	GTAC	2 cut(s)	110, 689
AflIII	ACRYGT	5 cut(s)	105, 530, 532, 647, 690
AgsI	TTSAA	8 cut(s)	59, 239, 250, 376, 443, 505, 562, 748
AhdI	GACNNNNNGTC	1 cut(s)	759
AhlI	ACTAGT	1 cut(s)	758
AjiI	CACGTC	2 cut(s)	106, 650
AluBI	AGCT	7 cut(s)	176, 197, 206, 627, 644, 675, 722
AluI	AGCT	7 cut(s)	176, 197, 206, 627, 644, 675, 722
Alw21I	GWGCWC	1 cut(s)	153
Alw26I	GTCTC	1 cut(s)	231
ApeKI	GCWGC	2 cut(s)	32, 722
ApoI	RAATTY	2 cut(s)	379, 732
AsuC2I	CCSGG	1 cut(s)	555
AsuHPI	GGTGA	2 cut(s)	101, 842
BbrPI	CACGTG	1 cut(s)	533
Bbv12I	GWGCWC	1 cut(s)	153
BbvI	GCAGC	2 cut(s)	44, 709
BccI	CCATC	1 cut(s)	358
BceAI	ACGGC	1 cut(s)	199
BcnI	CCSGG	1 cut(s)	555
BcoDI	GTCTC	1 cut(s)	231
BcuI	ACTAGT	1 cut(s)	758
BfaI	CTAG	2 cut(s)	62, 759
BfuAI	ACCTGC	1 cut(s)	675
BisI	GCNGC	2 cut(s)	33, 723
BlsI	GCNGC	2 cut(s)	34, 724
Bme1390I	CCNGG	1 cut(s)	555
BmeRI	GACNNNNNGTC	1 cut(s)	759
BmgBI	CACGTC	2 cut(s)	106, 650
BmrFI	CCNGG	1 cut(s)	555
BpuMI	CCSGG	1 cut(s)	555
BsaAI	YACGTR	2 cut(s)	325, 533
BsaJI	CCNNGG	2 cut(s)	85, 433
BseDI	CCNNGG	2 cut(s)	85, 433
BseGI	GGATG	5 cut(s)	334, 358, 580, 601, 903
BseMII	CTCAG	1 cut(s)	831
BseXI	GCAGC	2 cut(s)	44, 709
BsiHKAI	GWGCWC	1 cut(s)	153
BsiSI	CCGG	1 cut(s)	554
BslFI	GGGAC	1 cut(s)	766
BsmAI	GTCTC	1 cut(s)	231
BsmFI	GGGAC	1 cut(s)	766
Bsp1286I	GDGCHC	1 cut(s)	153
Bsp1407I	TGTACA	1 cut(s)	108
Bsp143I	GATC	1 cut(s)	309
Bsp19I	CCATGG	1 cut(s)	85
BspACI	CCGC	2 cut(s)	508, 887
BspCNI	CTCAG	1 cut(s)	830
BspMI	ACCTGC	1 cut(s)	675
BsrGI	TGTACA	1 cut(s)	108
BssECI	CCNNGG	2 cut(s)	85, 433
BssMI	GATC	1 cut(s)	309
BssT1I	CCWWGG	2 cut(s)	85, 433
Bst4CI	ACNGT	1 cut(s)	10
BstAUI	TGTACA	1 cut(s)	108
BstBAI	YACGTR	2 cut(s)	325, 533
BstC8I	GCNNGC	3 cut(s)	37, 720, 804
BstDEI	CTNAG	4 cut(s)	282, 412, 726, 817
BstDSI	CCRYGG	1 cut(s)	85
BstF5I	GGATG	5 cut(s)	334, 358, 580, 601, 903
BstKTI	GATC	1 cut(s)	312
BstMAI	GTCTC	1 cut(s)	231
BstMBI	GATC	1 cut(s)	309
BstMWI	GCNNNNNNNGC	3 cut(s)	32, 203, 681
BstNSI	RCATGY	2 cut(s)	39, 694
BstSCI	CCNGG	1 cut(s)	553
BstV1I	GCAGC	2 cut(s)	44, 709
BstXI	CCANNNNNNTGG	1 cut(s)	207
BtgI	CCRYGG	1 cut(s)	85
BtrI	CACGTC	2 cut(s)	106, 650
BtsCI	GGATG	5 cut(s)	334, 358, 580, 601, 903
BtsI	GCAGTG	1 cut(s)	298
BtsIMutI	CAGTG	1 cut(s)	298
BveI	ACCTGC	1 cut(s)	675
Cac8I	GCNNGC	3 cut(s)	37, 720, 804
Csp6I	GTAC	2 cut(s)	109, 688
CviAII	CATG	6 cut(s)	36, 86, 385, 661, 691, 764
CviJI	RGCY	9 cut(s)	176, 186, 197, 206, 395, 627, 644, 675, 722
CviKI_1	RGCY	9 cut(s)	176, 186, 197, 206, 395, 627, 644, 675, 722
CviQI	GTAC	2 cut(s)	109, 688
DdeI	CTNAG	4 cut(s)	282, 412, 726, 817
DpnI	GATC	1 cut(s)	311
DpnII	GATC	1 cut(s)	309
DriI	GACNNNNNGTC	1 cut(s)	759
Eam1105I	GACNNNNNGTC	1 cut(s)	759
Eco130I	CCWWGG	2 cut(s)	85, 433
Eco72I	CACGTG	1 cut(s)	533
EcoRI	GAATTC	2 cut(s)	379, 732
EcoT14I	CCWWGG	2 cut(s)	85, 433
ErhI	CCWWGG	2 cut(s)	85, 433
FaeI	CATG	6 cut(s)	39, 89, 388, 664, 694, 767
FalI	AAGNNNNNCTT	2 cut(s)	786, 818
FaqI	GGGAC	1 cut(s)	766
FatI	CATG	6 cut(s)	35, 85, 384, 660, 690, 763
Fnu4HI	GCNGC	2 cut(s)	33, 723
FokI	GGATG	4 cut(s)	341, 365, 587, 608
Fsp4HI	GCNGC	2 cut(s)	33, 723
FspBI	CTAG	2 cut(s)	62, 759
GluI	GCNGC	2 cut(s)	33, 723
HapII	CCGG	1 cut(s)	554
Hin1II	CATG	6 cut(s)	39, 89, 388, 664, 694, 767
HincII	GTYRAC	1 cut(s)	370
HindII	GTYRAC	1 cut(s)	370
HindIII	AAGCTT	1 cut(s)	625
HinfI	GANTC	3 cut(s)	224, 815, 842
HpaII	CCGG	1 cut(s)	554
HphI	GGTGA	2 cut(s)	101, 842
Hpy166II	GTNNAC	6 cut(s)	92, 109, 160, 279, 302, 370
Hpy188I	TCNGA	2 cut(s)	523, 820
Hpy188III	TCNNGA	3 cut(s)	250, 376, 653
Hpy8I	GTNNAC	6 cut(s)	92, 109, 160, 279, 302, 370
HpyAV	CCTTC	6 cut(s)	118, 133, 236, 350, 742, 775
HpyCH4III	ACNGT	1 cut(s)	10
HpyCH4IV	ACGT	4 cut(s)	105, 324, 532, 649
HpyCH4V	TGCA	6 cut(s)	32, 39, 77, 169, 451, 718
HpyF10VI	GCNNNNNNNGC	3 cut(s)	32, 203, 681
HpyF3I	CTNAG	4 cut(s)	282, 412, 726, 817
HpySE526I	ACGT	4 cut(s)	105, 324, 532, 649
Hsp92II	CATG	6 cut(s)	39, 89, 388, 664, 694, 767
Kzo9I	GATC	1 cut(s)	309
LmnI	GCTCC	1 cut(s)	202
LpnPI	CCDG	7 cut(s)	358, 567, 666, 670, 813, 843, 867
Lsp1109I	GCAGC	2 cut(s)	44, 709
MaeI	CTAG	2 cut(s)	62, 759
MaeII	ACGT	4 cut(s)	105, 324, 532, 649
MalI	GATC	1 cut(s)	311
MboI	GATC	1 cut(s)	309
MboII	GAAGA	8 cut(s)	47, 251, 421, 430, 803, 806, 848, 851
MfeI	CAATTG	1 cut(s)	546
MhlI	GDGCHC	1 cut(s)	153
MluCI	AATT	8 cut(s)	219, 379, 438, 546, 585, 615, 707, 732
MlyI	GAGTC	2 cut(s)	233, 809
MmeI	TCCRAC	1 cut(s)	601
MnlI	CCTC	5 cut(s)	35, 94, 343, 417, 779
MseI	TTAA	4 cut(s)	188, 579, 629, 677
MslI	CAYNNNNRTG	1 cut(s)	323
MspI	CCGG	1 cut(s)	554
MspR9I	CCNGG	1 cut(s)	555
MunI	CAATTG	1 cut(s)	546
MwoI	GCNNNNNNNGC	3 cut(s)	32, 203, 681
NciI	CCSGG	1 cut(s)	555
NcoI	CCATGG	1 cut(s)	85
NdeII	GATC	1 cut(s)	309
NlaIII	CATG	6 cut(s)	39, 89, 388, 664, 694, 767
NspI	RCATGY	2 cut(s)	39, 694
PaeI	GCATGC	1 cut(s)	39
PciI	ACATGT	1 cut(s)	690
PfeI	GAWTC	1 cut(s)	842
PkrI	GCNGC	2 cut(s)	34, 724
PleI	GAGTC	2 cut(s)	232, 809
PmaCI	CACGTG	1 cut(s)	533
PmlI	CACGTG	1 cut(s)	533
PpsI	GAGTC	2 cut(s)	232, 809
Ppu21I	YACGTR	2 cut(s)	325, 533
PscI	ACATGT	1 cut(s)	690
PspCI	CACGTG	1 cut(s)	533
RsaI	GTAC	2 cut(s)	110, 689
RsaNI	GTAC	2 cut(s)	109, 688
RseI	CAYNNNNRTG	1 cut(s)	323
SaqAI	TTAA	4 cut(s)	188, 579, 629, 677
SatI	GCNGC	2 cut(s)	33, 723
Sau3AI	GATC	1 cut(s)	309
SchI	GAGTC	2 cut(s)	233, 809
ScrFI	CCNGG	1 cut(s)	555
SduI	GDGCHC	1 cut(s)	153
SmiMI	CAYNNNNRTG	1 cut(s)	323
SpeI	ACTAGT	1 cut(s)	758
SphI	GCATGC	1 cut(s)	39
Sse9I	AATT	8 cut(s)	219, 379, 438, 546, 585, 615, 707, 732
SsiI	CCGC	2 cut(s)	508, 887
SspMI	CTAG	2 cut(s)	62, 759
StyD4I	CCNGG	1 cut(s)	553
StyI	CCWWGG	2 cut(s)	85, 433
TaaI	ACNGT	1 cut(s)	10
TaiI	ACGT	4 cut(s)	108, 327, 535, 652
TaqI	TCGA	2 cut(s)	217, 902
TasI	AATT	8 cut(s)	219, 379, 438, 546, 585, 615, 707, 732
TatI	WGTACW	1 cut(s)	108
TfiI	GAWTC	1 cut(s)	842
Tru1I	TTAA	4 cut(s)	188, 579, 629, 677
Tru9I	TTAA	4 cut(s)	188, 579, 629, 677
TscAI	CASTG	1 cut(s)	298
TseI	GCWGC	2 cut(s)	32, 722
TspDTI	ATGAA	5 cut(s)	223, 369, 404, 510, 849
TspRI	CASTG	1 cut(s)	298
XapI	RAATTY	2 cut(s)	379, 732
XceI	RCATGY	2 cut(s)	39, 694
XspI	CTAG	2 cut(s)	62, 759

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