Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0003980

Physical Location & Seq

Genomic Coordinates Reverse (-)

15952008 .. 15953346

Gene Structure 1339 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT3G44260.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 843 bp

ATGGCGATCATTAAACCAAACCGAGATCTCAAACCGGACGGTGTCACAGTCGTGACTCGTGAAGTCTGGGCGGAGAATCTCGAATCAGAATTTGAACTAATCAGCGAAATCATCGACGATTATCCATTTATCTCAATGGACACAGAATTTCCCGGCGTGATTTTCAAATCCGATCTCCGGTTTACGAATCCCGACGATCTTTATACTCTTCTTAAAGCTAACGTCGACGCTCTCAGCTTAATCCAAGTCGGTCTCACTCTCTCTGATGTTAACGGTAACCTCCCAGACCTCGGTGACGATCTTCACCGAGGATTCATCTGGGAGTTTAATTTCCGTGACTTCGACGTGGCGCGTGACGCACACGCGCCTGATTCGATCGAGTTGCTTCGTCGGCAAGGTATCGATTTTGAGCGGAATTGTCGCGACGGTGTTGAGTCGGAGAGGTTTGCGGAGCTGATGATGTCGTCGGGGCTTGTTTGTAATGAGGAAGTGAGCTGGGTGACGTTTCATAGCGCGTATGATTTCGGTTACTTGATGAAGATTCTCACGCGCCGAGAATTGCCCGGCGCGTTGGGGGAGTTTAAGCGCGTGATGAGAGTGTTGTTTGGGGAGCGTGTGTATGATGTGAAGCATATGATGAAGTTTTGTGAAAGGAGATTGTTTGGTGGTTTGGACCGGGTTGCAAGGACGCTTGAGGTTAACCGGGCGGTTGGGAAATGTCATCAAGCTGGTTCGGATAGTTTGCTTACGTGGCATGCGTTTCAGAGGATGAGGGATTTGTATTTTGTTCAAGATGGGCCGGAGAAACATGCTGGGGTTTTGTATGGGCTTGAGGTTTTTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000175 GO:0000288 GO:0000289 GO:0000291 GO:0000932 GO:0000956 GO:0002213 GO:0003674 GO:0003824 GO:0004518 GO:0004527 GO:0004532 GO:0004535 GO:0004540 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006401 GO:0006402 GO:0006417 GO:0006725 GO:0006807 GO:0006950 GO:0006952 GO:0008150 GO:0008152 GO:0008408 GO:0009056 GO:0009057 GO:0009605 GO:0009607 GO:0009611 GO:0009617 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010608 GO:0010629 GO:0016070 GO:0016071 GO:0016787 GO:0016788 GO:0016796 GO:0016896 GO:0017148 GO:0019222 GO:0019439 GO:0030014 GO:0030015 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032268 GO:0032269 GO:0032991 GO:0034248 GO:0034249 GO:0034641 GO:0034655 GO:0035770 GO:0036464 GO:0042742 GO:0043170 GO:0043207 GO:0043226 GO:0043228 GO:0043229 GO:0043232 GO:0043928 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044265 GO:0044270 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0046700 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051246 GO:0051248 GO:0051704 GO:0051707 GO:0060255 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0090305 GO:0090501 GO:0090503 GO:0098542 GO:0140098 GO:1901360 GO:1901361 GO:1901575 GO:1990904 GO:2000112 GO:2000113

KEGG Pathways

Metabolic & Signaling

ko03018 map03018

Pfam Domains

Protein Families

CAF1

Protein Analysis

280

Amino Acids

32.23

Weight (kDa)

4.98

Isoelectric Point (pI)

26.88

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CAF1	PF04857	22 - 145	2.8e-12	CAF1 family ribonuclease

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: OG0003980)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G44260 AT5G22250
fragaria_vesca	FvH4_3g25960 FvH4_6g19860
malus_domestica	MD03G1152000.v1.1 MD03G1152100.v1.1 MD11G1172400.v1.1 MD12G1034100.v1.1
prunus_persica	Prupe.6G139200_v2.0.a1 Prupe.6G139300_v2.0.a1 Prupe.6G139800_v2.0.a1 Prupe.7G098700_v2.0.a1
pyrus_communis	pycom03g10580 pycom05g09910 pycom11g14510 pycom12g03160 pycom14g03120
rosa_chinensis	RchiOBHm_Chr3g0475261 RchiOBHm_Chr5g0047241
rosa_laevigata	RLG00000023855 RLG00000034481
rosa_roxburghii	Rroxscaffold_1G00034130 Rroxscaffold_6G00406420
rosa_rugosa	Rorug03G0147600 Rorug05G0235200
rosa_samantha	Rh3AG197500 Rh3BG227800 Rh3DG223000 Rh5AG314100 Rh5CG349900 Rh5DG333600
rosa_wichuraiana	Rw3G017960 Rw5G029350

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	412
AccI	GTMKAC	1 cut(s)	225
AccII	CGCG	7 cut(s)	352, 365, 423, 515, 550, 569, 588
AciI	CCGC	4 cut(s)	71, 412, 449, 707
AcsI	RAATTY	2 cut(s)	89, 146
AfiI	CCNNNNNNNGG	2 cut(s)	177, 290
AgsI	TTSAA	3 cut(s)	95, 166, 791
AjiI	CACGTC	1 cut(s)	346
AleI	CACNNNNGTG	1 cut(s)	50
AluBI	AGCT	5 cut(s)	218, 237, 454, 495, 728
AluI	AGCT	5 cut(s)	218, 237, 454, 495, 728
Alw26I	GTCTC	1 cut(s)	257
AoxI	GGCC	1 cut(s)	797
ApoI	RAATTY	2 cut(s)	89, 146
AspLEI	GCGC	6 cut(s)	352, 367, 515, 552, 569, 588
AspS9I	GGNCC	2 cut(s)	673, 797
AsuC2I	CCSGG	4 cut(s)	153, 564, 677, 704
AsuHPI	GGTGA	3 cut(s)	296, 305, 511
AvaII	GGWCC	1 cut(s)	673
BauI	CACGAG	1 cut(s)	57
BccI	CCATC	1 cut(s)	788
BcgI	CGANNNNNNTGC	2 cut(s)	364, 398
BcnI	CCSGG	4 cut(s)	153, 564, 677, 704
BcoDI	GTCTC	1 cut(s)	257
BglII	AGATCT	1 cut(s)	25
Bme1390I	CCNGG	4 cut(s)	153, 564, 677, 704
Bme18I	GGWCC	1 cut(s)	673
BmgBI	CACGTC	1 cut(s)	346
BmgT120I	GGNCC	2 cut(s)	673, 797
BmrFI	CCNGG	4 cut(s)	153, 564, 677, 704
BpuEI	CTTGAG	1 cut(s)	713
BpuMI	CCSGG	4 cut(s)	153, 564, 677, 704
Bsa29I	ATCGAT	1 cut(s)	402
BsaAI	YACGTR	1 cut(s)	750
BsaI	GGTCTC	1 cut(s)	257
BsaJI	CCNNGG	2 cut(s)	289, 307
BsaWI	WCCGGW	2 cut(s)	34, 177
BsaXI	ACNNNNNCTCC	2 cut(s)	602, 632
Bsc4I	CCNNNNNNNGG	2 cut(s)	177, 290
BseCI	ATCGAT	1 cut(s)	402
BseDI	CCNNGG	2 cut(s)	289, 307
BseGI	GGATG	1 cut(s)	774
BseLI	CCNNNNNNNGG	2 cut(s)	177, 290
BseMII	CTCAG	1 cut(s)	247
BseYI	CCCAGC	2 cut(s)	495, 812
Bsh1236I	CGCG	7 cut(s)	352, 365, 423, 515, 550, 569, 588
Bsh1285I	CGRYCG	1 cut(s)	378
BshFI	GGCC	1 cut(s)	799
BshVI	ATCGAT	1 cut(s)	402
BsiEI	CGRYCG	1 cut(s)	378
BsiSI	CCGG	7 cut(s)	35, 153, 178, 564, 676, 703, 800
BslI	CCNNNNNNNGG	2 cut(s)	177, 290
BsmAI	GTCTC	1 cut(s)	257
BsnI	GGCC	1 cut(s)	799
Bso31I	GGTCTC	1 cut(s)	257
Bsp143I	GATC	6 cut(s)	6, 25, 172, 196, 298, 375
Bsp68I	TCGCGA	1 cut(s)	423
BspACI	CCGC	4 cut(s)	71, 412, 449, 707
BspANI	GGCC	1 cut(s)	799
BspCNI	CTCAG	1 cut(s)	246
BspDI	ATCGAT	1 cut(s)	402
BspFNI	CGCG	7 cut(s)	352, 365, 423, 515, 550, 569, 588
BspTNI	GGTCTC	1 cut(s)	257
BsrBI	CCGCTC	1 cut(s)	412
BssECI	CCNNGG	2 cut(s)	289, 307
BssMI	GATC	6 cut(s)	6, 25, 172, 196, 298, 375
BssSI	CACGAG	1 cut(s)	57
Bst2BI	CACGAG	1 cut(s)	57
Bst4CI	ACNGT	4 cut(s)	41, 49, 275, 428
Bst6I	CTCTTC	1 cut(s)	213
BstBAI	YACGTR	1 cut(s)	750
BstC8I	GCNNGC	1 cut(s)	756
BstDEI	CTNAG	1 cut(s)	233
BstEII	GGTNACC	1 cut(s)	275
BstF5I	GGATG	1 cut(s)	774
BstFNI	CGCG	7 cut(s)	352, 365, 423, 515, 550, 569, 588
BstHHI	GCGC	6 cut(s)	352, 367, 515, 552, 569, 588
BstKTI	GATC	6 cut(s)	9, 28, 175, 199, 301, 378
BstMAI	GTCTC	1 cut(s)	257
BstMBI	GATC	6 cut(s)	6, 25, 172, 196, 298, 375
BstMCI	CGRYCG	1 cut(s)	378
BstMWI	GCNNNNNNNGC	3 cut(s)	356, 391, 751
BstNSI	RCATGY	2 cut(s)	758, 812
BstPI	GGTNACC	1 cut(s)	275
BstSCI	CCNGG	4 cut(s)	151, 562, 675, 702
BstUI	CGCG	7 cut(s)	352, 365, 423, 515, 550, 569, 588
BstX2I	RGATCY	1 cut(s)	25
BstYI	RGATCY	1 cut(s)	25
Bsu15I	ATCGAT	1 cut(s)	402
BsuRI	GGCC	1 cut(s)	799
BsuTUI	ATCGAT	1 cut(s)	402
BtrI	CACGTC	1 cut(s)	346
BtsCI	GGATG	1 cut(s)	774
BtuMI	TCGCGA	1 cut(s)	423
Cac8I	GCNNGC	1 cut(s)	756
CfoI	GCGC	6 cut(s)	352, 367, 515, 552, 569, 588
Cfr13I	GGNCC	2 cut(s)	673, 797
ClaI	ATCGAT	1 cut(s)	402
CseI	GACGC	3 cut(s)	236, 365, 697
CviAII	CATG	2 cut(s)	755, 809
CviJI	RGCY	8 cut(s)	218, 237, 454, 472, 495, 728, 799, 829
CviKI_1	RGCY	8 cut(s)	218, 237, 454, 472, 495, 728, 799, 829
DdeI	CTNAG	1 cut(s)	233
DpnI	GATC	6 cut(s)	8, 27, 174, 198, 300, 377
DpnII	GATC	6 cut(s)	6, 25, 172, 196, 298, 375
Eam1104I	CTCTTC	1 cut(s)	213
EarI	CTCTTC	1 cut(s)	213
EciI	GGCGGA	1 cut(s)	86
Eco31I	GGTCTC	1 cut(s)	257
Eco47I	GGWCC	1 cut(s)	673
Eco91I	GGTNACC	1 cut(s)	275
EcoO65I	GGTNACC	1 cut(s)	275
FaeI	CATG	2 cut(s)	758, 812
FaiI	YATR	9 cut(s)	204, 510, 519, 621, 633, 635, 756, 810, 825
FatI	CATG	2 cut(s)	754, 808
FauNDI	CATATG	1 cut(s)	633
FblI	GTMKAC	1 cut(s)	225
FokI	GGATG	1 cut(s)	781
GlaI	GCGC	6 cut(s)	351, 366, 514, 551, 568, 587
GsaI	CCCAGC	2 cut(s)	499, 816
HaeIII	GGCC	1 cut(s)	799
HapII	CCGG	7 cut(s)	35, 153, 178, 564, 676, 703, 800
HgaI	GACGC	3 cut(s)	236, 365, 697
HhaI	GCGC	6 cut(s)	352, 367, 515, 552, 569, 588
Hin1II	CATG	2 cut(s)	758, 812
Hin6I	GCGC	6 cut(s)	350, 365, 513, 550, 567, 586
HinP1I	GCGC	6 cut(s)	350, 365, 513, 550, 567, 586
HincII	GTYRAC	3 cut(s)	226, 271, 700
HindII	GTYRAC	3 cut(s)	226, 271, 700
HinfI	GANTC	8 cut(s)	55, 76, 83, 187, 312, 371, 434, 541
HpaI	GTTAAC	2 cut(s)	271, 700
HpaII	CCGG	7 cut(s)	35, 153, 178, 564, 676, 703, 800
HphI	GGTGA	3 cut(s)	296, 305, 511
Hpy166II	GTNNAC	4 cut(s)	183, 226, 271, 700
Hpy188I	TCNGA	6 cut(s)	88, 172, 265, 439, 736, 765
Hpy188III	TCNNGA	6 cut(s)	52, 59, 80, 191, 422, 791
Hpy8I	GTNNAC	4 cut(s)	183, 226, 271, 700
Hpy99I	CGWCG	8 cut(s)	119, 197, 227, 230, 347, 393, 428, 469
HpyCH4III	ACNGT	4 cut(s)	41, 49, 275, 428
HpyCH4IV	ACGT	4 cut(s)	222, 345, 503, 749
HpyCH4V	TGCA	1 cut(s)	683
HpyF10VI	GCNNNNNNNGC	3 cut(s)	356, 391, 751
HpyF3I	CTNAG	1 cut(s)	233
HpySE526I	ACGT	4 cut(s)	222, 345, 503, 749
Hsp92II	CATG	2 cut(s)	758, 812
HspAI	GCGC	6 cut(s)	350, 365, 513, 550, 567, 586
KspAI	GTTAAC	2 cut(s)	271, 700
Kzo9I	GATC	6 cut(s)	6, 25, 172, 196, 298, 375
LmnI	GCTCC	2 cut(s)	451, 610
MaeII	ACGT	4 cut(s)	222, 345, 503, 749
MaeIII	GTNAC	8 cut(s)	43, 52, 275, 293, 335, 353, 499, 527
MalI	GATC	6 cut(s)	8, 27, 174, 198, 300, 377
MbiI	CCGCTC	1 cut(s)	412
MboI	GATC	6 cut(s)	6, 25, 172, 196, 298, 375
MboII	GAAGA	3 cut(s)	200, 293, 550
MflI	RGATCY	1 cut(s)	25
MluCI	AATT	5 cut(s)	89, 146, 328, 415, 557
MlyI	GAGTC	2 cut(s)	49, 443
MmeI	TCCRAC	1 cut(s)	417
MnlI	CCTC	9 cut(s)	290, 299, 302, 435, 478, 688, 759, 765, 826
MseI	TTAA	8 cut(s)	12, 213, 239, 270, 327, 582, 699, 841
MslI	CAYNNNNRTG	1 cut(s)	50
MspI	CCGG	7 cut(s)	35, 153, 178, 564, 676, 703, 800
MspR9I	CCNGG	4 cut(s)	153, 564, 677, 704
MvnI	CGCG	7 cut(s)	352, 365, 423, 515, 550, 569, 588
MwoI	GCNNNNNNNGC	3 cut(s)	356, 391, 751
NciI	CCSGG	4 cut(s)	153, 564, 677, 704
NdeI	CATATG	1 cut(s)	633
NdeII	GATC	6 cut(s)	6, 25, 172, 196, 298, 375
NlaIII	CATG	2 cut(s)	758, 812
NmeAIII	GCCGAG	1 cut(s)	578
NmuCI	GTSAC	6 cut(s)	43, 52, 293, 335, 353, 499
NruI	TCGCGA	1 cut(s)	423
NspI	RCATGY	2 cut(s)	758, 812
OliI	CACNNNNGTG	1 cut(s)	50
PaeI	GCATGC	1 cut(s)	758
PcsI	WCGNNNNNNNCGW	1 cut(s)	755
PfeI	GAWTC	6 cut(s)	76, 83, 187, 312, 371, 541
PflFI	GACNNNGTC	1 cut(s)	41
Ple19I	CGATCG	1 cut(s)	378
PleI	GAGTC	2 cut(s)	49, 442
PpsI	GAGTC	2 cut(s)	49, 442
Ppu21I	YACGTR	1 cut(s)	750
PspEI	GGTNACC	1 cut(s)	275
PspFI	CCCAGC	2 cut(s)	495, 812
PspPI	GGNCC	2 cut(s)	673, 797
PsuI	RGATCY	1 cut(s)	25
PsyI	GACNNNGTC	1 cut(s)	41
PvuI	CGATCG	1 cut(s)	378
RruI	TCGCGA	1 cut(s)	423
RseI	CAYNNNNRTG	1 cut(s)	50
SalI	GTCGAC	1 cut(s)	224
SaqAI	TTAA	8 cut(s)	12, 213, 239, 270, 327, 582, 699, 841
Sau3AI	GATC	6 cut(s)	6, 25, 172, 196, 298, 375
Sau96I	GGNCC	2 cut(s)	673, 797
SchI	GAGTC	2 cut(s)	49, 443
ScrFI	CCNGG	4 cut(s)	153, 564, 677, 704
SgrDI	CGTCGACG	1 cut(s)	224
SinI	GGWCC	1 cut(s)	673
SmiMI	CAYNNNNRTG	1 cut(s)	50
SmlI	CTYRAG	2 cut(s)	692, 830
SmoI	CTYRAG	2 cut(s)	692, 830
SphI	GCATGC	1 cut(s)	758
Sse9I	AATT	5 cut(s)	89, 146, 328, 415, 557
SsiI	CCGC	4 cut(s)	71, 412, 449, 707
StyD4I	CCNGG	4 cut(s)	151, 562, 675, 702
TaaI	ACNGT	4 cut(s)	41, 49, 275, 428
TaiI	ACGT	4 cut(s)	225, 348, 506, 752
TaqI	TCGA	7 cut(s)	81, 114, 225, 342, 374, 378, 402
TaqII	GACCGA	1 cut(s)	239
TasI	AATT	5 cut(s)	89, 146, 328, 415, 557
TfiI	GAWTC	6 cut(s)	76, 83, 187, 312, 371, 541
Tru1I	TTAA	8 cut(s)	12, 213, 239, 270, 327, 582, 699, 841
Tru9I	TTAA	8 cut(s)	12, 213, 239, 270, 327, 582, 699, 841
TseFI	GTSAC	6 cut(s)	43, 52, 293, 335, 353, 499
Tsp45I	GTSAC	6 cut(s)	43, 52, 293, 335, 353, 499
TspDTI	ATGAA	4 cut(s)	304, 497, 551, 653
TspGWI	ACGGA	1 cut(s)	323
Tth111I	GACNNNGTC	1 cut(s)	41
VpaK11BI	GGWCC	1 cut(s)	673
XapI	RAATTY	2 cut(s)	89, 146
XceI	RCATGY	2 cut(s)	758, 812
XmiI	GTMKAC	1 cut(s)	225

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