Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0001616

Physical Location & Seq

Genomic Coordinates Forward (+)

36789973 .. 36831138

Gene Structure 41166 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG331600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 756 bp

ATGTTAGACGGGCTCGAACAAAGCGACGATGAAATTGAAATGGAGGACTCCATGGCCAGTGCAGAGCCGCCGGCGATTCGCAACGAGGAGTTCCGGTGGAAGAGAGTGGAGAAGCTCTGCGAAGATGTGAAACAGTTCGGCGAGGAAATGATTGACGACGGTGCTCTCGCCTCAATCTACGATTTCCAAATCGATAAATTTCAGAGATTAGCTATACAAGCATGCTTGAGAAGTTCATCAGTAGTTGTGACTGCGCCGACGAGTAGCGGAAAGACTTTGATAGCAGAAGCTGCTGCTGTAGCAACCGTAGCCAAGGGAAGAAGATTGTTCTACACAACTTCGCTTAAGGCCTTATTGAATCAGAAGTTTCACGAATTTCGTGAAACTTTCGGTGAAAATAATGTTGGTCTTCTCACGGGAGATTCGGCAGTAAACGAAGATGCTCAGGGACTTGATGATCCTGATGATGAACTTGAGGACAACATTCTGGAATGGAAACAGCCAGGCACTAGAACTCAGGAACTGCCTTTGCTCATGCAGTTCCGACTTTTTTACAAAGGCTATGCTATCAAAGGAACTTTTCTTGTCAATAAACTGCAGAGTATGTTGATGGCACTGATTGGAGAGCAATTTGATGAGGGTGATGAGATTTGTGGAGTGGTAGCAAGTGTGCGCCAGAGGCATGACAAACTTTCATTGTGGACTAGGAATGCTGCAAACGAGGCTGCCCAGATGTTAGTTTTTATCTTTTGGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000373 GO:0000375 GO:0000377 GO:0003006 GO:0003674 GO:0003676 GO:0003723 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0006810 GO:0007275 GO:0008026 GO:0008150 GO:0008152 GO:0008186 GO:0008380 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009790 GO:0009791 GO:0009793 GO:0009892 GO:0009987 GO:0010154 GO:0010467 GO:0010468 GO:0010494 GO:0010496 GO:0010497 GO:0010501 GO:0010605 GO:0010608 GO:0010629 GO:0016070 GO:0016071 GO:0016441 GO:0016458 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0019222 GO:0022414 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032991 GO:0034641 GO:0035770 GO:0036464 GO:0040029 GO:0042623 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:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0048316 GO:0048519 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0051179 GO:0051234 GO:0060255 GO:0061458 GO:0065007 GO:0070013 GO:0070035 GO:0071704 GO:0090304 GO:0097159 GO:0140098 GO:1901360 GO:1901363 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DEAD DSHCT Helicase_C

Protein Analysis

251

Amino Acids

28.29

Weight (kDa)

4.56

Isoelectric Point (pI)

50.06

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	66 - 149	5.9e-12	DEAD/DEAH box helicase
IF4E	PF01652	200 - 245	7.7e-13	Eukaryotic initiation factor 4E

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: OG0001616)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr2g0102891
rosa_laevigata	RLG00000003325 RLG00000010663 RLG00000014743 RLG00000021608 RLG00000028731
rosa_multiflora	Rmu_co8212272.1_g000001 Rmu_co8257291.1_g000001 Rmu_sc0000375.1_g000004 Rmu_sc0001619.1_g000004 Rmu_sc0002160.1_g000017 Rmu_sc0002960.1_g000003 Rmu_sc0004031.1_g000010 Rmu_sc0011657.1_g000008 Rmu_sc0014046.1_g000004
rosa_roxburghii	Rroxscaffold_1G00024170 Rroxscaffold_2G00149140 Rroxscaffold_5G00382470
rosa_rugosa	Rorug02G0226400 Rorug02G0226500 Rorug04G0046600 Rorug05G0408800 Rorug05G0408900 Rorug06G0089500 Rorug06G0089600 Rorug06G0089700.1 Rorug06G0089800
rosa_samantha	Rh1BG120900 Rh2AG219500 Rh2AG390100 Rh2BG229500 Rh2CG165000 Rh2DG225900 Rh2DG381600 Rh3BG369300 Rh3CG331600 Rh3DG328600 Rh4AG016000 Rh4AG058100 Rh4BG056900 Rh4CG112600 Rh4CG219300 Rh4CG219400 Rh4DG021700 Rh5DG477800 Rh5DG495600 Rh7AG221500 Rh7AG324600 Rh7CG341400
rosa_wichuraiana	Rw1G015160

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	68, 267
AclWI	GGATC	1 cut(s)	452
AcoI	YGGCCR	1 cut(s)	54
AcsI	RAATTY	2 cut(s)	197, 374
AflII	CTTAAG	1 cut(s)	344
AgsI	TTSAA	2 cut(s)	38, 358
AjnI	CCWGG	1 cut(s)	502
AjuI	GAANNNNNNNTTGG	2 cut(s)	387, 419
AluBI	AGCT	3 cut(s)	115, 212, 290
AluI	AGCT	3 cut(s)	115, 212, 290
Alw21I	GWGCWC	1 cut(s)	166
AlwI	GGATC	1 cut(s)	452
AlwNI	CAGNNNCTG	2 cut(s)	290, 523
AoxI	GGCC	2 cut(s)	54, 348
ApeKI	GCWGC	4 cut(s)	290, 293, 713, 725
ApoI	RAATTY	2 cut(s)	197, 374
Asp700I	GAANNNNTTC	1 cut(s)	134
AspLEI	GCGC	2 cut(s)	256, 675
AsuHPI	GGTGA	2 cut(s)	404, 653
BalI	TGGCCA	1 cut(s)	56
BanII	GRGCYC	1 cut(s)	15
BbsI	GAAGAC	1 cut(s)	401
Bbv12I	GWGCWC	1 cut(s)	166
BbvI	GCAGC	4 cut(s)	277, 280, 700, 712
BccI	CCATC	1 cut(s)	604
BciT130I	CCWGG	1 cut(s)	504
BfaI	CTAG	2 cut(s)	510, 705
BfmI	CTRYAG	2 cut(s)	297, 596
BfrI	CTTAAG	1 cut(s)	344
BisI	GCNGC	5 cut(s)	68, 291, 294, 714, 726
BlsI	GCNGC	5 cut(s)	69, 292, 295, 715, 727
Bme1390I	CCNGG	1 cut(s)	504
BmrFI	CCNGG	1 cut(s)	504
BmsI	GCATC	1 cut(s)	430
BpiI	GAAGAC	1 cut(s)	401
Bpu10I	CCTNAGC	1 cut(s)	444
BpuEI	CTTGAG	2 cut(s)	247, 494
Bsa29I	ATCGAT	1 cut(s)	192
BsaJI	CCNNGG	2 cut(s)	51, 312
BsaWI	WCCGGW	1 cut(s)	93
BsaXI	ACNNNNNCTCC	2 cut(s)	80, 110
Bse118I	RCCGGY	1 cut(s)	70
Bse1I	ACTGG	1 cut(s)	57
BseBI	CCWGG	1 cut(s)	504
BseCI	ATCGAT	1 cut(s)	192
BseDI	CCNNGG	2 cut(s)	51, 312
BseMII	CTCAG	2 cut(s)	458, 530
BseNI	ACTGG	1 cut(s)	57
BseRI	GAGGAG	1 cut(s)	101
BseXI	GCAGC	4 cut(s)	277, 280, 700, 712
BsgI	GTGCAG	1 cut(s)	81
BshFI	GGCC	2 cut(s)	56, 350
BshVI	ATCGAT	1 cut(s)	192
BsiHKAI	GWGCWC	1 cut(s)	166
BsiSI	CCGG	2 cut(s)	71, 94
BslFI	GGGAC	1 cut(s)	462
BsmFI	GGGAC	1 cut(s)	462
BsmI	GAATGC	1 cut(s)	715
BsnI	GGCC	2 cut(s)	56, 350
Bsp1286I	GDGCHC	2 cut(s)	15, 166
Bsp143I	GATC	1 cut(s)	457
Bsp19I	CCATGG	1 cut(s)	51
BspACI	CCGC	2 cut(s)	68, 267
BspANI	GGCC	2 cut(s)	56, 350
BspCNI	CTCAG	2 cut(s)	457, 529
BspDI	ATCGAT	1 cut(s)	192
BspMAI	CTGCAG	1 cut(s)	600
BspPI	GGATC	1 cut(s)	452
BspTI	CTTAAG	1 cut(s)	344
BsrFI	RCCGGY	1 cut(s)	70
BsrI	ACTGG	1 cut(s)	57
BssAI	RCCGGY	1 cut(s)	70
BssECI	CCNNGG	2 cut(s)	51, 312
BssMI	GATC	1 cut(s)	457
BssT1I	CCWWGG	2 cut(s)	51, 312
Bst2UI	CCWGG	1 cut(s)	504
Bst4CI	ACNGT	3 cut(s)	135, 161, 307
Bst6I	CTCTTC	1 cut(s)	95
BstAFI	CTTAAG	1 cut(s)	344
BstAPI	GCANNNNNTGC	1 cut(s)	290
BstC8I	GCNNGC	2 cut(s)	72, 223
BstDEI	CTNAG	2 cut(s)	444, 516
BstDSI	CCRYGG	1 cut(s)	51
BstHHI	GCGC	2 cut(s)	256, 675
BstKTI	GATC	1 cut(s)	460
BstMBI	GATC	1 cut(s)	457
BstMWI	GCNNNNNNNGC	6 cut(s)	218, 290, 299, 308, 679, 722
BstNI	CCWGG	1 cut(s)	504
BstNSI	RCATGY	1 cut(s)	225
BstSCI	CCNGG	1 cut(s)	502
BstSFI	CTRYAG	2 cut(s)	297, 596
BstV1I	GCAGC	4 cut(s)	277, 280, 700, 712
BstV2I	GAAGAC	1 cut(s)	401
Bsu15I	ATCGAT	1 cut(s)	192
BsuRI	GGCC	2 cut(s)	56, 350
BsuTUI	ATCGAT	1 cut(s)	192
BtgI	CCRYGG	1 cut(s)	51
BtsIMutI	CAGTG	2 cut(s)	64, 614
Cac8I	GCNNGC	2 cut(s)	72, 223
CaiI	CAGNNNCTG	2 cut(s)	290, 523
CfoI	GCGC	2 cut(s)	256, 675
Cfr10I	RCCGGY	1 cut(s)	70
ClaI	ATCGAT	1 cut(s)	192
CviAII	CATG	4 cut(s)	52, 222, 535, 683
DdeI	CTNAG	2 cut(s)	444, 516
DpnI	GATC	1 cut(s)	459
DpnII	GATC	1 cut(s)	457
EaeI	YGGCCR	1 cut(s)	54
Eam1104I	CTCTTC	1 cut(s)	95
EarI	CTCTTC	1 cut(s)	95
Eco130I	CCWWGG	2 cut(s)	51, 312
Eco147I	AGGCCT	1 cut(s)	350
Eco24I	GRGCYC	1 cut(s)	15
EcoRII	CCWGG	1 cut(s)	502
EcoT14I	CCWWGG	2 cut(s)	51, 312
EcoT38I	GRGCYC	1 cut(s)	15
ErhI	CCWWGG	2 cut(s)	51, 312
FaeI	CATG	4 cut(s)	55, 225, 538, 686
FaiI	YATR	7 cut(s)	53, 215, 223, 536, 564, 605, 684
FaqI	GGGAC	1 cut(s)	462
FatI	CATG	4 cut(s)	51, 221, 534, 682
Fnu4HI	GCNGC	5 cut(s)	68, 291, 294, 714, 726
FriOI	GRGCYC	1 cut(s)	15
Fsp4HI	GCNGC	5 cut(s)	68, 291, 294, 714, 726
FspBI	CTAG	2 cut(s)	510, 705
GlaI	GCGC	2 cut(s)	255, 674
GluI	GCNGC	5 cut(s)	68, 291, 294, 714, 726
HaeIII	GGCC	2 cut(s)	56, 350
HapII	CCGG	2 cut(s)	71, 94
HhaI	GCGC	2 cut(s)	256, 675
Hin1II	CATG	4 cut(s)	55, 225, 538, 686
Hin6I	GCGC	2 cut(s)	254, 673
HinP1I	GCGC	2 cut(s)	254, 673
HinfI	GANTC	4 cut(s)	47, 76, 358, 422
HpaII	CCGG	2 cut(s)	71, 94
HphI	GGTGA	2 cut(s)	404, 653
Hpy166II	GTNNAC	2 cut(s)	433, 702
Hpy188I	TCNGA	3 cut(s)	204, 363, 545
Hpy188III	TCNNGA	5 cut(s)	371, 380, 461, 488, 518
Hpy8I	GTNNAC	2 cut(s)	433, 702
Hpy99I	CGWCG	3 cut(s)	29, 161, 262
HpyCH4III	ACNGT	3 cut(s)	135, 161, 307
HpyCH4V	TGCA	4 cut(s)	62, 538, 598, 716
HpyF10VI	GCNNNNNNNGC	6 cut(s)	218, 290, 299, 308, 679, 722
HpyF3I	CTNAG	2 cut(s)	444, 516
Hsp92II	CATG	4 cut(s)	55, 225, 538, 686
HspAI	GCGC	2 cut(s)	254, 673
KroI	GCCGGC	1 cut(s)	70
KroNI	GCCGGC	1 cut(s)	72
Kzo9I	GATC	1 cut(s)	457
Lsp1109I	GCAGC	4 cut(s)	277, 280, 700, 712
LweI	GCATC	1 cut(s)	430
MaeI	CTAG	2 cut(s)	510, 705
MaeIII	GTNAC	1 cut(s)	247
MalI	GATC	1 cut(s)	459
MboI	GATC	1 cut(s)	457
MboII	GAAGA	6 cut(s)	112, 134, 330, 333, 401, 449
MhlI	GDGCHC	2 cut(s)	15, 166
MlsI	TGGCCA	1 cut(s)	56
MluCI	AATT	4 cut(s)	33, 197, 374, 629
MluNI	TGGCCA	1 cut(s)	56
MlyI	GAGTC	1 cut(s)	41
MmeI	TCCRAC	1 cut(s)	568
MnlI	CCTC	8 cut(s)	37, 79, 136, 181, 469, 631, 672, 715
Mox20I	TGGCCA	1 cut(s)	56
MreI	CGCCGGCG	1 cut(s)	70
MroNI	GCCGGC	1 cut(s)	70
MroXI	GAANNNNTTC	1 cut(s)	134
MscI	TGGCCA	1 cut(s)	56
MseI	TTAA	1 cut(s)	345
Msp20I	TGGCCA	1 cut(s)	56
MspCI	CTTAAG	1 cut(s)	344
MspI	CCGG	2 cut(s)	71, 94
MspR9I	CCNGG	1 cut(s)	504
Mva1269I	GAATGC	1 cut(s)	715
MvaI	CCWGG	1 cut(s)	504
MwoI	GCNNNNNNNGC	6 cut(s)	218, 290, 299, 308, 679, 722
NaeI	GCCGGC	1 cut(s)	72
NcoI	CCATGG	1 cut(s)	51
NdeII	GATC	1 cut(s)	457
NgoMIV	GCCGGC	1 cut(s)	70
NlaIII	CATG	4 cut(s)	55, 225, 538, 686
NmuCI	GTSAC	1 cut(s)	247
NspI	RCATGY	1 cut(s)	225
PaeI	GCATGC	1 cut(s)	225
PceI	AGGCCT	1 cut(s)	350
PcsI	WCGNNNNNNNCGW	1 cut(s)	21
PctI	GAATGC	1 cut(s)	715
PdiI	GCCGGC	1 cut(s)	72
PdmI	GAANNNNTTC	1 cut(s)	134
PfeI	GAWTC	3 cut(s)	76, 358, 422
PkrI	GCNGC	5 cut(s)	69, 292, 295, 715, 727
PleI	GAGTC	1 cut(s)	41
PpsI	GAGTC	1 cut(s)	41
Psp6I	CCWGG	1 cut(s)	502
PspGI	CCWGG	1 cut(s)	502
PstI	CTGCAG	1 cut(s)	600
PstNI	CAGNNNCTG	2 cut(s)	290, 523
SaqAI	TTAA	1 cut(s)	345
SatI	GCNGC	5 cut(s)	68, 291, 294, 714, 726
Sau3AI	GATC	1 cut(s)	457
SchI	GAGTC	1 cut(s)	41
ScrFI	CCNGG	1 cut(s)	504
SduI	GDGCHC	2 cut(s)	15, 166
SetI	ASST	3 cut(s)	117, 214, 292
SfaNI	GCATC	1 cut(s)	430
SfcI	CTRYAG	2 cut(s)	297, 596
SgrAI	CRCCGGYG	1 cut(s)	70
SmlI	CTYRAG	3 cut(s)	226, 344, 473
SmoI	CTYRAG	3 cut(s)	226, 344, 473
SphI	GCATGC	1 cut(s)	225
Sse9I	AATT	4 cut(s)	33, 197, 374, 629
SseBI	AGGCCT	1 cut(s)	350
SsiI	CCGC	2 cut(s)	68, 267
SspMI	CTAG	2 cut(s)	510, 705
StuI	AGGCCT	1 cut(s)	350
StyD4I	CCNGG	1 cut(s)	502
StyI	CCWWGG	2 cut(s)	51, 312
TaaI	ACNGT	3 cut(s)	135, 161, 307
TaqI	TCGA	2 cut(s)	15, 192
TasI	AATT	4 cut(s)	33, 197, 374, 629
TauI	GCSGC	1 cut(s)	70
TfiI	GAWTC	3 cut(s)	76, 358, 422
Tru1I	TTAA	1 cut(s)	345
Tru9I	TTAA	1 cut(s)	345
TscAI	CASTG	2 cut(s)	64, 621
TseFI	GTSAC	1 cut(s)	247
TseI	GCWGC	4 cut(s)	290, 293, 713, 725
Tsp45I	GTSAC	1 cut(s)	247
TspDTI	ATGAA	4 cut(s)	45, 225, 483, 684
TspRI	CASTG	2 cut(s)	64, 621
Vha464I	CTTAAG	1 cut(s)	344
XapI	RAATTY	2 cut(s)	197, 374
XceI	RCATGY	1 cut(s)	225
XmnI	GAANNNNTTC	1 cut(s)	134
XspI	CTAG	2 cut(s)	510, 705

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