Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr15

Orthogroup ID

OG0003887

Physical Location & Seq

Genomic Coordinates Reverse (-)

15580478 .. 15587357

Gene Structure 6880 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD15G1196200.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1104 bp

ATGGAAGACGACAACAGCACAAAACAGCTTCGCATATGCAGGGCGGCGAGGACAATAAAACGACGGCAGAATACCCTTTTCAACGCTCTTAAATCAATCTACGACGACTCAATCTTTGTCGGCGAAATCTCCCATCTCTGGTCGGACCTCCCTCTCCTCGCCAACCTCCGCTTCGGCCTCTGGTATTCTCCTACTGCCAACTTCCACTCCACCTGTTACTTCAAATCCACCGACGGCCACACAAACAACTGGCCCTTCAACACCTCCCGAGTCCCGCCTCAACCTCCACGACAGAAAATAGGGTGCTTGATTGTGGATGCGACTCGGAAGGGGAAGCGATTTCCAGACAGCGTGTCGAAGACGATACCGATTTGGACATGTGTTTTGAATCGGGCGATTTATAAGGAGTTAAGTACTTCTGGTGAACATTCTGAAGATAATGGACAGATCAATTTGGATTGGGATTGTTCCTTGCATCTTCCTCTTTGGCTTTCAGAAAAAAGAGAAGGCTTCTATCGAGGATCGATTAGACAAATGGACCCAACGGGCATATTTTTTGTATGTGTTTCAGACCATGGTGTTTGTGAGCAGGAGCCGGCGATGATGGAAGAAAGCTGGGCAAGGGGTTTAACACCCACCCTCTTCTGGAATCATGCCTATGATATTATAAATGCCTGGCCTGTTTTGTGTAACCAGATGGTAGCTGATATAGTTGAGAAGGATCAAGTTTATCGTGCTCGAAGGGGACAAATTGCTCCTCAGGCTTCTGTCAACACTCCGAATTTGACATCAAAGTTTGATCGGTTTACCTTGTTTAATAATCTCCCTTCTGCTCTGAACTTTGCAAAGTTGAATCTAAGTGAAGGGAAGACCCTCCTAATTTGGTGCCATAACGGGGAAGATATCAGCTTATGTGTATGTCTTGCAATCTTGACTTCATTATTTGATGATAGAGGAACCTTTGATGGTGGAAGATTCTTCAGTGATACATGCATTACAAAATTGGAAATGCGGAGAAGACTCGTAACTATCTGTAAATATGTAGTAAATGCCAGGCCTTCAAGAGGAAACCTGAAGCAGGTTTTCGGTTTTCTTAATGGCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006396 GO:0006399 GO:0006400 GO:0006464 GO:0006725 GO:0006807 GO:0008033 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0010467 GO:0016070 GO:0016740 GO:0016757 GO:0016763 GO:0019538 GO:0019988 GO:0034470 GO:0034641 GO:0034660 GO:0036211 GO:0043170 GO:0043399 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0140098 GO:0140101 GO:1901360 GO:1901564

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Init_tRNA_PT Rit1_C

Protein Analysis

368

Amino Acids

41.91

Weight (kDa)

8.64

Isoelectric Point (pI)

35.59

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rit1_C	PF17184	19 - 152	4.6e-47	Rit1 N-terminal domain
Init_tRNA_PT	PF04179	263 - 365	1e-26	Rit1 DUSP-like domain

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: OG0003887)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G40570 AT2G40570 AT2G40570
fragaria_vesca	FvH4_1g06070 FvH4_1g06070 FvH4_1g06070 FvH4_1g06070 FvH4_1g06070 FvH4_1g06070 FvH4_1g06070 FvH4_1g06070 FvH4_1g06070 FvH4_1g06070 FvH4_1g06070 FvH4_1g06070 FvH4_1g06070 FvH4_1g06070 FvH4_1g06070
malus_domestica	MD02G1065300.v1.1 MD15G1196200.v1.1
prunus_persica	Prupe.7G220200_v2.0.a1 Prupe.7G220200_v2.0.a1 Prupe.7G220200_v2.0.a1
pyrus_communis	pycom02g05140
rosa_chinensis	RchiOBHm_Chr2g0091831
rosa_laevigata	RLG00000016255
rosa_multiflora	Rmu_sc0021402.1_g000004
rosa_roxburghii	Rroxscaffold_2G00149700
rosa_rugosa	Rorug02G0021400
rosa_samantha	Rh2AG066000 Rh2BG065500 Rh2CG066900 Rh2DG065100
rosa_wichuraiana	Rw2G005460

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	402, 668
Acc36I	ACCTGC	1 cut(s)	1069
AccB1I	GGYRCC	1 cut(s)	885
AciI	CCGC	4 cut(s)	44, 169, 275, 1012
AclWI	GGATC	2 cut(s)	529, 729
AcoI	YGGCCR	1 cut(s)	235
AcsI	RAATTY	1 cut(s)	781
AcuI	CTGAAG	3 cut(s)	453, 964, 1094
AfaI	GTAC	1 cut(s)	415
AfiI	CCNNNNNNNGG	5 cut(s)	138, 645, 895, 1064, 1078
AflIII	ACRYGT	1 cut(s)	377
AgsI	TTSAA	6 cut(s)	82, 223, 259, 388, 853, 1062
AhdI	GACNNNNNGTC	1 cut(s)	352
AjnI	CCWGG	2 cut(s)	674, 1052
AjuI	GAANNNNNNNTTGG	2 cut(s)	155, 187
AluBI	AGCT	4 cut(s)	28, 615, 704, 909
AluI	AGCT	4 cut(s)	28, 615, 704, 909
Alw21I	GWGCWC	1 cut(s)	739
AlwI	GGATC	2 cut(s)	529, 729
Ama87I	CYCGRG	1 cut(s)	267
AoxI	GGCC	5 cut(s)	175, 235, 251, 677, 1055
ApoI	RAATTY	1 cut(s)	781
ArsI	GACNNNNNNTTYG	4 cut(s)	98, 130, 367, 399
AspS9I	GGNCC	3 cut(s)	145, 252, 538
AsuHPI	GGTGA	1 cut(s)	434
AvaI	CYCGRG	1 cut(s)	267
AvaII	GGWCC	2 cut(s)	145, 538
AxyI	CCTNAGG	1 cut(s)	759
BanI	GGYRCC	1 cut(s)	885
BbsI	GAAGAC	4 cut(s)	12, 365, 875, 1024
Bbv12I	GWGCWC	1 cut(s)	739
BccI	CCATC	4 cut(s)	141, 598, 691, 959
BceAI	ACGGC	2 cut(s)	80, 250
BciT130I	CCWGG	2 cut(s)	676, 1054
BfuAI	ACCTGC	1 cut(s)	1069
BisI	GCNGC	1 cut(s)	45
BlsI	GCNGC	1 cut(s)	46
BmcAI	AGTACT	1 cut(s)	415
Bme1390I	CCNGG	2 cut(s)	676, 1054
Bme18I	GGWCC	2 cut(s)	145, 538
BmeRI	GACNNNNNGTC	1 cut(s)	352
BmeT110I	CYCGRG	1 cut(s)	267
BmgT120I	GGNCC	3 cut(s)	145, 252, 538
BmiI	GGNNCC	4 cut(s)	540, 594, 887, 958
BmrFI	CCNGG	2 cut(s)	676, 1054
BmsI	GCATC	2 cut(s)	307, 484
BpiI	GAAGAC	4 cut(s)	12, 365, 875, 1024
Bsa29I	ATCGAT	1 cut(s)	524
BsaJI	CCNNGG	1 cut(s)	574
BsaXI	ACNNNNNCTCC	2 cut(s)	191, 221
Bsc4I	CCNNNNNNNGG	5 cut(s)	138, 645, 895, 1064, 1078
Bse118I	RCCGGY	1 cut(s)	595
Bse1I	ACTGG	1 cut(s)	254
Bse21I	CCTNAGG	1 cut(s)	759
BseBI	CCWGG	2 cut(s)	676, 1054
BseCI	ATCGAT	1 cut(s)	524
BseDI	CCNNGG	1 cut(s)	574
BseGI	GGATG	1 cut(s)	322
BseLI	CCNNNNNNNGG	5 cut(s)	138, 645, 895, 1064, 1078
BseMII	CTCAG	1 cut(s)	773
BseNI	ACTGG	1 cut(s)	254
BseRI	GAGGAG	2 cut(s)	146, 747
BseYI	CCCAGC	1 cut(s)	615
BshFI	GGCC	5 cut(s)	177, 237, 253, 679, 1057
BshNI	GGYRCC	1 cut(s)	885
BshVI	ATCGAT	1 cut(s)	524
BsiHKAI	GWGCWC	1 cut(s)	739
BsiHKCI	CYCGRG	1 cut(s)	267
BsiSI	CCGG	1 cut(s)	596
BslFI	GGGAC	2 cut(s)	257, 759
BslI	CCNNNNNNNGG	5 cut(s)	138, 645, 895, 1064, 1078
BsmFI	GGGAC	2 cut(s)	257, 759
BsnI	GGCC	5 cut(s)	177, 237, 253, 679, 1057
BsoBI	CYCGRG	1 cut(s)	267
Bsp1286I	GDGCHC	1 cut(s)	739
Bsp143I	GATC	4 cut(s)	447, 521, 721, 799
Bsp19I	CCATGG	1 cut(s)	574
BspACI	CCGC	4 cut(s)	44, 169, 275, 1012
BspANI	GGCC	5 cut(s)	177, 237, 253, 679, 1057
BspCNI	CTCAG	1 cut(s)	772
BspDI	ATCGAT	1 cut(s)	524
BspLI	GGNNCC	4 cut(s)	540, 594, 887, 958
BspMI	ACCTGC	1 cut(s)	1069
BspPI	GGATC	2 cut(s)	529, 729
BspT107I	GGYRCC	1 cut(s)	885
BsrFI	RCCGGY	1 cut(s)	595
BsrI	ACTGG	1 cut(s)	254
BssAI	RCCGGY	1 cut(s)	595
BssECI	CCNNGG	1 cut(s)	574
BssMI	GATC	4 cut(s)	447, 521, 721, 799
BssT1I	CCWWGG	1 cut(s)	574
Bst2UI	CCWGG	2 cut(s)	676, 1054
Bst6I	CTCTTC	1 cut(s)	647
BstC8I	GCNNGC	1 cut(s)	597
BstDEI	CTNAG	2 cut(s)	759, 857
BstDSI	CCRYGG	1 cut(s)	574
BstENI	CCTNNNNNAGG	2 cut(s)	1062, 1076
BstF5I	GGATG	1 cut(s)	322
BstKTI	GATC	4 cut(s)	450, 524, 724, 802
BstMBI	GATC	4 cut(s)	447, 521, 721, 799
BstMWI	GCNNNNNNNGC	1 cut(s)	761
BstNI	CCWGG	2 cut(s)	676, 1054
BstNSI	RCATGY	2 cut(s)	381, 993
BstSCI	CCNGG	2 cut(s)	674, 1052
BstV2I	GAAGAC	4 cut(s)	12, 365, 875, 1024
Bsu15I	ATCGAT	1 cut(s)	524
Bsu36I	CCTNAGG	1 cut(s)	759
BsuRI	GGCC	5 cut(s)	177, 237, 253, 679, 1057
BsuTUI	ATCGAT	1 cut(s)	524
BtgI	CCRYGG	1 cut(s)	574
BtgZI	GCGATG	1 cut(s)	614
BtsCI	GGATG	1 cut(s)	322
BtsIMutI	CAGTG	1 cut(s)	988
BveI	ACCTGC	1 cut(s)	1069
Cac8I	GCNNGC	1 cut(s)	597
Cfr10I	RCCGGY	1 cut(s)	595
Cfr13I	GGNCC	3 cut(s)	145, 252, 538
ClaI	ATCGAT	1 cut(s)	524
Csp6I	GTAC	1 cut(s)	414
CviAII	CATG	4 cut(s)	378, 575, 653, 990
CviQI	GTAC	1 cut(s)	414
DdeI	CTNAG	2 cut(s)	759, 857
DpnI	GATC	4 cut(s)	449, 523, 723, 801
DpnII	GATC	4 cut(s)	447, 521, 721, 799
DriI	GACNNNNNGTC	1 cut(s)	352
EaeI	YGGCCR	1 cut(s)	235
Eam1104I	CTCTTC	1 cut(s)	647
Eam1105I	GACNNNNNGTC	1 cut(s)	352
EarI	CTCTTC	1 cut(s)	647
Eco130I	CCWWGG	1 cut(s)	574
Eco147I	AGGCCT	1 cut(s)	1057
Eco32I	GATATC	1 cut(s)	904
Eco47I	GGWCC	2 cut(s)	145, 538
Eco57I	CTGAAG	3 cut(s)	453, 964, 1094
Eco81I	CCTNAGG	1 cut(s)	759
Eco88I	CYCGRG	1 cut(s)	267
EcoNI	CCTNNNNNAGG	2 cut(s)	1062, 1076
EcoRII	CCWGG	2 cut(s)	674, 1052
EcoRV	GATATC	1 cut(s)	904
EcoT14I	CCWWGG	1 cut(s)	574
EcoT22I	ATGCAT	1 cut(s)	995
ErhI	CCWWGG	1 cut(s)	574
FaeI	CATG	4 cut(s)	381, 578, 656, 993
FaqI	GGGAC	2 cut(s)	257, 759
FatI	CATG	4 cut(s)	377, 574, 652, 989
FauI	CCCGC	1 cut(s)	282
FauNDI	CATATG	1 cut(s)	35
Fnu4HI	GCNGC	1 cut(s)	45
FokI	GGATG	1 cut(s)	329
Fsp4HI	GCNGC	1 cut(s)	45
GluI	GCNGC	1 cut(s)	45
GsaI	CCCAGC	1 cut(s)	619
HaeIII	GGCC	5 cut(s)	177, 237, 253, 679, 1057
HapII	CCGG	1 cut(s)	596
Hin1II	CATG	4 cut(s)	381, 578, 656, 993
HincII	GTYRAC	1 cut(s)	772
HindII	GTYRAC	1 cut(s)	772
HinfI	GANTC	8 cut(s)	107, 270, 322, 388, 649, 853, 975, 1020
HpaII	CCGG	1 cut(s)	596
HphI	GGTGA	1 cut(s)	434
Hpy166II	GTNNAC	3 cut(s)	425, 772, 807
Hpy188I	TCNGA	7 cut(s)	145, 327, 433, 496, 571, 780, 837
Hpy188III	TCNNGA	5 cut(s)	267, 344, 646, 931, 1062
Hpy8I	GTNNAC	3 cut(s)	425, 772, 807
Hpy99I	CGWCG	3 cut(s)	66, 107, 236
HpyAV	CCTTC	8 cut(s)	265, 322, 500, 712, 735, 837, 857, 1068
HpyCH4V	TGCA	5 cut(s)	39, 475, 845, 926, 993
HpyF10VI	GCNNNNNNNGC	1 cut(s)	761
HpyF3I	CTNAG	2 cut(s)	759, 857
Hsp92II	CATG	4 cut(s)	381, 578, 656, 993
KroI	GCCGGC	1 cut(s)	595
KroNI	GCCGGC	1 cut(s)	597
Kzo9I	GATC	4 cut(s)	447, 521, 721, 799
LmnI	GCTCC	2 cut(s)	592, 760
LweI	GCATC	2 cut(s)	307, 484
MaeIII	GTNAC	3 cut(s)	215, 689, 1024
MalI	GATC	4 cut(s)	449, 523, 723, 801
MboI	GATC	4 cut(s)	447, 521, 721, 799
MhlI	GDGCHC	1 cut(s)	739
MluCI	AATT	5 cut(s)	451, 750, 781, 879, 1001
MlyI	GAGTC	4 cut(s)	101, 279, 316, 1014
MmeI	TCCRAC	1 cut(s)	123
Mph1103I	ATGCAT	1 cut(s)	995
MroNI	GCCGGC	1 cut(s)	595
MseI	TTAA	5 cut(s)	90, 410, 629, 816, 1095
MslI	CAYNNNNRTG	1 cut(s)	657
MspI	CCGG	1 cut(s)	596
MspR9I	CCNGG	2 cut(s)	676, 1054
MvaI	CCWGG	2 cut(s)	676, 1054
MwoI	GCNNNNNNNGC	1 cut(s)	761
NaeI	GCCGGC	1 cut(s)	597
NcoI	CCATGG	1 cut(s)	574
NdeI	CATATG	1 cut(s)	35
NdeII	GATC	4 cut(s)	447, 521, 721, 799
NgoMIV	GCCGGC	1 cut(s)	595
NlaIII	CATG	4 cut(s)	381, 578, 656, 993
NlaIV	GGNNCC	4 cut(s)	540, 594, 887, 958
NsiI	ATGCAT	1 cut(s)	995
NspI	RCATGY	2 cut(s)	381, 993
PceI	AGGCCT	1 cut(s)	1057
PciI	ACATGT	1 cut(s)	377
PdiI	GCCGGC	1 cut(s)	597
PfeI	GAWTC	4 cut(s)	388, 649, 853, 975
PkrI	GCNGC	1 cut(s)	46
PleI	GAGTC	4 cut(s)	101, 278, 316, 1014
PpsI	GAGTC	4 cut(s)	101, 278, 316, 1014
PscI	ACATGT	1 cut(s)	377
PsiI	TTATAA	2 cut(s)	402, 668
Psp6I	CCWGG	2 cut(s)	674, 1052
PspFI	CCCAGC	1 cut(s)	615
PspGI	CCWGG	2 cut(s)	674, 1052
PspN4I	GGNNCC	4 cut(s)	540, 594, 887, 958
PspPI	GGNCC	3 cut(s)	145, 252, 538
RsaI	GTAC	1 cut(s)	415
RsaNI	GTAC	1 cut(s)	414
RseI	CAYNNNNRTG	1 cut(s)	657
SaqAI	TTAA	5 cut(s)	90, 410, 629, 816, 1095
SatI	GCNGC	1 cut(s)	45
Sau3AI	GATC	4 cut(s)	447, 521, 721, 799
Sau96I	GGNCC	3 cut(s)	145, 252, 538
ScaI	AGTACT	1 cut(s)	415
SchI	GAGTC	4 cut(s)	101, 279, 316, 1014
ScrFI	CCNGG	2 cut(s)	676, 1054
SduI	GDGCHC	1 cut(s)	739
SfaNI	GCATC	2 cut(s)	307, 484
SinI	GGWCC	2 cut(s)	145, 538
SmiMI	CAYNNNNRTG	1 cut(s)	657
Sse9I	AATT	5 cut(s)	451, 750, 781, 879, 1001
SseBI	AGGCCT	1 cut(s)	1057
SsiI	CCGC	4 cut(s)	44, 169, 275, 1012
StuI	AGGCCT	1 cut(s)	1057
StyD4I	CCNGG	2 cut(s)	674, 1052
StyI	CCWWGG	1 cut(s)	574
TaqI	TCGA	4 cut(s)	356, 517, 524, 739
TasI	AATT	5 cut(s)	451, 750, 781, 879, 1001
TatI	WGTACW	1 cut(s)	413
TauI	GCSGC	1 cut(s)	47
TfiI	GAWTC	4 cut(s)	388, 649, 853, 975
Tru1I	TTAA	5 cut(s)	90, 410, 629, 816, 1095
Tru9I	TTAA	5 cut(s)	90, 410, 629, 816, 1095
TscAI	CASTG	1 cut(s)	988
TspDTI	ATGAA	1 cut(s)	927
TspRI	CASTG	1 cut(s)	988
VpaK11BI	GGWCC	2 cut(s)	145, 538
XagI	CCTNNNNNAGG	2 cut(s)	1062, 1076
XapI	RAATTY	1 cut(s)	781
XceI	RCATGY	2 cut(s)	381, 993
ZrmI	AGTACT	1 cut(s)	415
Zsp2I	ATGCAT	1 cut(s)	995

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