CU085396 (transcribed_cluster) Cucumber (Chinese Long) v2 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CU085396
Type	transcribed_cluster
Organism	Cucumis. sativus (Cucumber (Chinese Long) v2)
Description	Ribosome biogenesis GTPase A
Location	Chr5 : 12477446 .. 12483855 (-)
Sequence length	690

Genome Viewer

Sequences

The following sequences are available for this feature:

transcribed_cluster sequence

ATTGAAGTGGGTTCGTTTTGGCAACGATCTTGAGTTGCTTGATTCTCCTGGTATCATACCAATGCGGATTAGTGACCAGACAGCTGCAATAAAGCTTGCTATATGCGATGACATTGGGGAGAGGTCCTACAATGCTGCTGATGTTGCTGCCATTTTTGTACAGATTCTGACCAAGCTCCCATCAGTAGGTATAGAAACACTTCAAAAGCGGTACAAAGTTGATGCAGGCGGTCAGTGTGGTCAAATATTTGTTCAAAAGTTAGCCCTCCAATTGTTCAACGGGGACAATCATCAAGCAGCTTTTCGCATTTTATCGGATTTTCGCAAAGGAAAGTTTGGTTGGACTGCTTTGGAGAGGCCTCCCAGGTAATGCTGTTGGATGATGGTTTGCTTGAAGGTCAGAATTTGAGCTTCTCGCTTTTACACTAGTTGTACAGATTTTAAAGGCCACTCTCAAACTGAGAAATGAAATTCACGATGCTTATATTGCTTTCGACTTGCGGACTTGTGGGAAGCTCAAAATTGGAGCCCTTGATCATAAATGGTAATGAATCTCATTAATTTGTGAAGCCATTGTGATCATGTATTATATGCTTTTACATCACTCATGTAATTAAAACAATCGTTTTGGTTAACCTCCAATTGTATCCCAAATGAAATTGGTAGTTCTTTACTATTAATATCTTTACC

Library


Library category	ESTs
Cucumber fruit library	1
fruit (8DPP) library	2

Homology

[Close]

BLAST of CU085396 vs. Swiss-Prot
Match: DGP3_ARATH (DAR GTPase 3, chloroplastic OS=Arabidopsis thaliana GN=DGP3 PE=2 SV=1)

HSP 1 Score: 171.0 bits (432), Expect = 1.5e-41
Identity = 78/121 (64.46%), Postives = 95/121 (78.51%), Query Frame = 2


Query: 2   LKWVRFGNDLELLDSPGIIPMRISDQTAAIKLAICDDIGERSYNAADVAAIFVQILTKLP 61
           +KWV+ G DL+LLDSPG++PMRI DQ AAIKLAICDDIGE++Y+  DVA I VQ+L ++P
Sbjct: 251 MKWVKLGKDLDLLDSPGMLPMRIDDQAAAIKLAICDDIGEKAYDFTDVAGILVQMLARIP 310

Query: 62  SVGIETLQKRYKVDAGGQCGQIFVQKLALQLFNGDNHQAAFRILSDFRKGKFGWTALERP 121
            VG + L  RYK+   G CG+ FV+ L L LF GD+HQAAFRIL+DFRKGKFG+ +LERP
Sbjct: 311 EVGAKALYNRYKIQLEGNCGKKFVKTLGLNLFGGDSHQAAFRILTDFRKGKFGYVSLERP 370

Query: 122 P 181
           P
Sbjct: 371 P 371

Query: 182  241
           
Sbjct: 431  371

Query: 242  301
           
Sbjct: 491  371

Query: 302  361
           
Sbjct: 551  371

Query: 362  365
           
Sbjct: 611  371

[Close]

BLAST of CU085396 vs. TrEMBL
Match: A0A059A828_EUCGR (Uncharacterized protein OS=Eucalyptus grandis GN=EUGRSUZ_K03362 PE=4 SV=1)

HSP 1 Score: 210.7 bits (535), Expect = 1.9e-51
Identity = 101/122 (82.79%), Postives = 108/122 (88.52%), Query Frame = 2


Query: 2   LKWVRFGNDLELLDSPGIIPMRISDQTAAIKLAICDDIGERSYNAADVAAIFVQILTKLP 61
           LKWV FG DLELLDSPGIIPMRISDQ AAIKLAICDDIGE+SYN ADVAAI VQ+LT+LP
Sbjct: 246 LKWVHFGKDLELLDSPGIIPMRISDQVAAIKLAICDDIGEKSYNVADVAAILVQMLTRLP 305

Query: 62  SVGIETLQKRYKVDAGGQCGQIFVQKLALQLFNGDNHQAAFRILSDFRKGKFGWTALERP 121
           +VG+  LQ RYK+D  G CG IFVQK+ALQLFNGD HQAAFRILSDFRKGKFGW ALERP
Sbjct: 306 AVGVGVLQNRYKIDVDGHCGDIFVQKVALQLFNGDIHQAAFRILSDFRKGKFGWVALERP 365

Query: 122 PR 181
           PR
Sbjct: 366 PR 367

Query: 182  241
           
Sbjct: 426  367

Query: 242  301
           
Sbjct: 486  367

Query: 302  361
           
Sbjct: 546  367

Query: 362  368
           
Sbjct: 606  367

[Close]

BLAST of CU085396 vs. TrEMBL
Match: A0A059A972_EUCGR (Uncharacterized protein OS=Eucalyptus grandis GN=EUGRSUZ_K03362 PE=4 SV=1)

HSP 1 Score: 210.7 bits (535), Expect = 1.9e-51
Identity = 101/122 (82.79%), Postives = 108/122 (88.52%), Query Frame = 2


Query: 2   LKWVRFGNDLELLDSPGIIPMRISDQTAAIKLAICDDIGERSYNAADVAAIFVQILTKLP 61
           LKWV FG DLELLDSPGIIPMRISDQ AAIKLAICDDIGE+SYN ADVAAI VQ+LT+LP
Sbjct: 247 LKWVHFGKDLELLDSPGIIPMRISDQVAAIKLAICDDIGEKSYNVADVAAILVQMLTRLP 306

Query: 62  SVGIETLQKRYKVDAGGQCGQIFVQKLALQLFNGDNHQAAFRILSDFRKGKFGWTALERP 121
           +VG+  LQ RYK+D  G CG IFVQK+ALQLFNGD HQAAFRILSDFRKGKFGW ALERP
Sbjct: 307 AVGVGVLQNRYKIDVDGHCGDIFVQKVALQLFNGDIHQAAFRILSDFRKGKFGWVALERP 366

Query: 122 PR 181
           PR
Sbjct: 367 PR 368

Query: 182  241
           
Sbjct: 427  368

Query: 242  301
           
Sbjct: 487  368

Query: 302  361
           
Sbjct: 547  368

Query: 362  368
           
Sbjct: 607  368

[Close]

BLAST of CU085396 vs. TrEMBL
Match: A9PEM5_POPTR (Uncharacterized protein OS=Populus trichocarpa GN=POPTR_0005s23150g PE=2 SV=1)

HSP 1 Score: 207.2 bits (526), Expect = 2.1e-50
Identity = 100/122 (81.97%), Postives = 109/122 (89.34%), Query Frame = 2


Query: 2   LKWVRFGNDLELLDSPGIIPMRISDQTAAIKLAICDDIGERSYNAADVAAIFVQILTKLP 61
           L+WVRFGNDLELLDSPGIIPMRISDQ+AAIKLAICDDIGERSY+  DVAAI VQILTKLP
Sbjct: 246 LRWVRFGNDLELLDSPGIIPMRISDQSAAIKLAICDDIGERSYDVTDVAAILVQILTKLP 305

Query: 62  SVGIETLQKRYKVDAGGQCGQIFVQKLALQLFNGDNHQAAFRILSDFRKGKFGWTALERP 121
           +VG + L  RYK+DA   CG+IFVQKL++ LFNGD HQAAFRILSDFRKGKFGW ALERP
Sbjct: 306 TVGAKALNNRYKMDADDFCGKIFVQKLSVHLFNGDTHQAAFRILSDFRKGKFGWAALERP 365

Query: 122 PR 181
           PR
Sbjct: 366 PR 367

Query: 182  241
           
Sbjct: 426  367

Query: 242  301
           
Sbjct: 486  367

Query: 302  361
           
Sbjct: 546  367

Query: 362  368
           
Sbjct: 606  367

[Close]

BLAST of CU085396 vs. TrEMBL
Match: B9S422_RICCO (Nucleolar GTP-binding protein, putative OS=Ricinus communis GN=RCOM_0557790 PE=4 SV=1)

HSP 1 Score: 206.8 bits (525), Expect = 2.7e-50
Identity = 96/122 (78.69%), Postives = 112/122 (91.80%), Query Frame = 2


Query: 2   LKWVRFGNDLELLDSPGIIPMRISDQTAAIKLAICDDIGERSYNAADVAAIFVQILTKLP 61
           LKWVRFGN+LELLDSPG++PMRI+DQ+AAIKLAICDDIGERSY+ ADVAAI VQ+LT++P
Sbjct: 224 LKWVRFGNELELLDSPGMLPMRINDQSAAIKLAICDDIGERSYDVADVAAILVQMLTRIP 283

Query: 62  SVGIETLQKRYKVDAGGQCGQIFVQKLALQLFNGDNHQAAFRILSDFRKGKFGWTALERP 121
           SVG+E L +RYK+D  G  G+IF+QKLA+QLFNGD HQAAFRIL+DFRKGKFGW ALERP
Sbjct: 284 SVGLEALHRRYKIDVDGYNGRIFIQKLAIQLFNGDTHQAAFRILTDFRKGKFGWVALERP 343

Query: 122 PR 181
           PR
Sbjct: 344 PR 345

Query: 182  241
           
Sbjct: 404  345

Query: 242  301
           
Sbjct: 464  345

Query: 302  361
           
Sbjct: 524  345

Query: 362  368
           
Sbjct: 584  345

[Close]

BLAST of CU085396 vs. TrEMBL
Match: B9H886_POPTR (GTP-binding family protein OS=Populus trichocarpa GN=POPTR_0005s23150g PE=4 SV=1)

HSP 1 Score: 206.5 bits (524), Expect = 3.6e-50
Identity = 101/128 (78.91%), Postives = 111/128 (86.72%), Query Frame = 2


Query: 2   LKWVRFGNDLELLDSPGIIPMRISDQTAAIKLAICDDIGERSYNAADVAAIFVQILTKLP 61
           L+WVRFGNDLELLDSPGIIPMRISDQ+AAIKLAICDDIGERSY+  DVAAI VQILTKLP
Sbjct: 246 LRWVRFGNDLELLDSPGIIPMRISDQSAAIKLAICDDIGERSYDVTDVAAILVQILTKLP 305

Query: 62  SVGIETLQKRYKVDAGGQCGQIFVQKLALQLFNGDNHQAAFRILSDFRKGKFGWTALERP 121
           +VG + L  RYK+DA   CG+IFVQKL++ LFNGD HQAAFRILSDFRKGKFGW ALERP
Sbjct: 306 TVGAKALNNRYKMDADDFCGKIFVQKLSVHLFNGDTHQAAFRILSDFRKGKFGWAALERP 365

Query: 122 PR*CCWMM 181
           P    W+M
Sbjct: 366 P--SLWLM 371

Query: 182  241
           
Sbjct: 426  371

Query: 242  301
           
Sbjct: 486  371

Query: 302  361
           
Sbjct: 546  371

Query: 362  386
           
Sbjct: 606  371

[Close]

BLAST of CU085396 vs. NCBI nr
Match: gi|778702006|ref|XP_011655122.1| (PREDICTED: mitochondrial ribosome-associated GTPase 1 [Cucumis sativus])

HSP 1 Score: 250.0 bits (637), Expect = 4.0e-63
Identity = 121/122 (99.18%), Postives = 121/122 (99.18%), Query Frame = 2


Query: 2   LKWVRFGNDLELLDSPGIIPMRISDQTAAIKLAICDDIGERSYNAADVAAIFVQILTKLP 61
           LKWVRFGNDLELLDSPGIIPMRISDQTAAIKLAICDDIGERSYNAADVAAI VQILTKLP
Sbjct: 248 LKWVRFGNDLELLDSPGIIPMRISDQTAAIKLAICDDIGERSYNAADVAAILVQILTKLP 307

Query: 62  SVGIETLQKRYKVDAGGQCGQIFVQKLALQLFNGDNHQAAFRILSDFRKGKFGWTALERP 121
           SVGIETLQKRYKVDAGGQCGQIFVQKLALQLFNGDNHQAAFRILSDFRKGKFGWTALERP
Sbjct: 308 SVGIETLQKRYKVDAGGQCGQIFVQKLALQLFNGDNHQAAFRILSDFRKGKFGWTALERP 367

Query: 122 PR 181
           PR
Sbjct: 368 PR 369

Query: 182  241
           
Sbjct: 428  369

Query: 242  301
           
Sbjct: 488  369

Query: 302  361
           
Sbjct: 548  369

Query: 362  368
           
Sbjct: 608  369

[Close]

BLAST of CU085396 vs. NCBI nr
Match: gi|659126309|ref|XP_008463116.1| (PREDICTED: mitochondrial ribosome-associated GTPase 1 [Cucumis melo])

HSP 1 Score: 244.2 bits (622), Expect = 2.2e-61
Identity = 118/122 (96.72%), Postives = 119/122 (97.54%), Query Frame = 2


Query: 2   LKWVRFGNDLELLDSPGIIPMRISDQTAAIKLAICDDIGERSYNAADVAAIFVQILTKLP 61
           LKWVRFG DLELLDSPGIIPMRISDQTAAIKLAICDDIGERSYNAADVAAI VQILTKLP
Sbjct: 248 LKWVRFGKDLELLDSPGIIPMRISDQTAAIKLAICDDIGERSYNAADVAAILVQILTKLP 307

Query: 62  SVGIETLQKRYKVDAGGQCGQIFVQKLALQLFNGDNHQAAFRILSDFRKGKFGWTALERP 121
           SVGIE+LQKRYKVDAGGQCG IFVQKLALQLFNGDNHQAAFRILSDFRKGKFGWTALERP
Sbjct: 308 SVGIESLQKRYKVDAGGQCGHIFVQKLALQLFNGDNHQAAFRILSDFRKGKFGWTALERP 367

Query: 122 PR 181
           PR
Sbjct: 368 PR 369

Query: 182  241
           
Sbjct: 428  369

Query: 242  301
           
Sbjct: 488  369

Query: 302  361
           
Sbjct: 548  369

Query: 362  368
           
Sbjct: 608  369

[Close]

BLAST of CU085396 vs. NCBI nr
Match: gi|629083445|gb|KCW49890.1| (hypothetical protein EUGRSUZ_K03362 [Eucalyptus grandis])

HSP 1 Score: 215.7 bits (548), Expect = 8.4e-53
Identity = 101/122 (82.79%), Postives = 108/122 (88.52%), Query Frame = 2


Query: 2   LKWVRFGNDLELLDSPGIIPMRISDQTAAIKLAICDDIGERSYNAADVAAIFVQILTKLP 61
           LKWV FG DLELLDSPGIIPMRISDQ AAIKLAICDDIGE+SYN ADVAAI VQ+LT+LP
Sbjct: 247 LKWVHFGKDLELLDSPGIIPMRISDQVAAIKLAICDDIGEKSYNVADVAAILVQMLTRLP 306

Query: 62  SVGIETLQKRYKVDAGGQCGQIFVQKLALQLFNGDNHQAAFRILSDFRKGKFGWTALERP 121
           +VG+  LQ RYK+D  G CG IFVQK+ALQLFNGD HQAAFRILSDFRKGKFGW ALERP
Sbjct: 307 AVGVGVLQNRYKIDVDGHCGDIFVQKVALQLFNGDIHQAAFRILSDFRKGKFGWVALERP 366

Query: 122 PR 181
           PR
Sbjct: 367 PR 368

Query: 182  241
           
Sbjct: 427  368

Query: 242  301
           
Sbjct: 487  368

Query: 302  361
           
Sbjct: 547  368

Query: 362  368
           
Sbjct: 607  368

[Close]

BLAST of CU085396 vs. NCBI nr
Match: gi|702499899|ref|XP_010038090.1| (PREDICTED: mitochondrial ribosome-associated GTPase 1 isoform X2 [Eucalyptus grandis])

HSP 1 Score: 215.7 bits (548), Expect = 8.4e-53
Identity = 101/122 (82.79%), Postives = 108/122 (88.52%), Query Frame = 2


Query: 2   LKWVRFGNDLELLDSPGIIPMRISDQTAAIKLAICDDIGERSYNAADVAAIFVQILTKLP 61
           LKWV FG DLELLDSPGIIPMRISDQ AAIKLAICDDIGE+SYN ADVAAI VQ+LT+LP
Sbjct: 243 LKWVHFGKDLELLDSPGIIPMRISDQVAAIKLAICDDIGEKSYNVADVAAILVQMLTRLP 302

Query: 62  SVGIETLQKRYKVDAGGQCGQIFVQKLALQLFNGDNHQAAFRILSDFRKGKFGWTALERP 121
           +VG+  LQ RYK+D  G CG IFVQK+ALQLFNGD HQAAFRILSDFRKGKFGW ALERP
Sbjct: 303 AVGVGVLQNRYKIDVDGHCGDIFVQKVALQLFNGDIHQAAFRILSDFRKGKFGWVALERP 362

Query: 122 PR 181
           PR
Sbjct: 363 PR 364

Query: 182  241
           
Sbjct: 423  364

Query: 242  301
           
Sbjct: 483  364

Query: 302  361
           
Sbjct: 543  364

Query: 362  368
           
Sbjct: 603  364

[Close]

BLAST of CU085396 vs. NCBI nr
Match: gi|702499894|ref|XP_010038089.1| (PREDICTED: mitochondrial ribosome-associated GTPase 1 isoform X1 [Eucalyptus grandis])

HSP 1 Score: 215.7 bits (548), Expect = 8.4e-53
Identity = 101/122 (82.79%), Postives = 108/122 (88.52%), Query Frame = 2


Query: 2   LKWVRFGNDLELLDSPGIIPMRISDQTAAIKLAICDDIGERSYNAADVAAIFVQILTKLP 61
           LKWV FG DLELLDSPGIIPMRISDQ AAIKLAICDDIGE+SYN ADVAAI VQ+LT+LP
Sbjct: 246 LKWVHFGKDLELLDSPGIIPMRISDQVAAIKLAICDDIGEKSYNVADVAAILVQMLTRLP 305

Query: 62  SVGIETLQKRYKVDAGGQCGQIFVQKLALQLFNGDNHQAAFRILSDFRKGKFGWTALERP 121
           +VG+  LQ RYK+D  G CG IFVQK+ALQLFNGD HQAAFRILSDFRKGKFGW ALERP
Sbjct: 306 AVGVGVLQNRYKIDVDGHCGDIFVQKVALQLFNGDIHQAAFRILSDFRKGKFGWVALERP 365

Query: 122 PR 181
           PR
Sbjct: 366 PR 367

Query: 182  241
           
Sbjct: 426  367

Query: 242  301
           
Sbjct: 486  367

Query: 302  361
           
Sbjct: 546  367

Query: 362  368
           
Sbjct: 606  367

The following BLAST results are available for this feature:

BLAST of CU085396 vs. Swiss-Prot


Match Name	E-value	Identity	Description
DGP3_ARATH	1.5e-41	64.46	DAR GTPase 3, chloroplastic OS=Arabidopsis thaliana GN=DGP3 PE=2 SV=1	[more]

BLAST of CU085396 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A059A828_EUCGR	1.9e-51	82.79	Uncharacterized protein OS=Eucalyptus grandis GN=EUGRSUZ_K03362 PE=4 SV=1	[more]
A0A059A972_EUCGR	1.9e-51	82.79	Uncharacterized protein OS=Eucalyptus grandis GN=EUGRSUZ_K03362 PE=4 SV=1	[more]
A9PEM5_POPTR	2.1e-50	81.97	Uncharacterized protein OS=Populus trichocarpa GN=POPTR_0005s23150g PE=2 SV=1	[more]
B9S422_RICCO	2.7e-50	78.69	Nucleolar GTP-binding protein, putative OS=Ricinus communis GN=RCOM_0557790 PE=4...	[more]
B9H886_POPTR	3.6e-50	78.91	GTP-binding family protein OS=Populus trichocarpa GN=POPTR_0005s23150g PE=4 SV=1	[more]

BLAST of CU085396 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|778702006\|ref\|XP_011655122.1\|	4.0e-63	99.18	PREDICTED: mitochondrial ribosome-associated GTPase 1 [Cucumis sativus]	[more]
gi\|659126309\|ref\|XP_008463116.1\|	2.2e-61	96.72	PREDICTED: mitochondrial ribosome-associated GTPase 1 [Cucumis melo]	[more]
gi\|629083445\|gb\|KCW49890.1\|	8.4e-53	82.79	hypothetical protein EUGRSUZ_K03362 [Eucalyptus grandis]	[more]
gi\|702499899\|ref\|XP_010038090.1\|	8.4e-53	82.79	PREDICTED: mitochondrial ribosome-associated GTPase 1 isoform X2 [Eucalyptus gra...	[more]
gi\|702499894\|ref\|XP_010038089.1\|	8.4e-53	82.79	PREDICTED: mitochondrial ribosome-associated GTPase 1 isoform X1 [Eucalyptus gra...	[more]

Annotated Terms

The following terms have been associated with this transcribed_cluster:

Vocabulary: **INTERPRO**
Term	Definition
IPR023179	GTP-bd_ortho_bundle_sf

Relationships

This transcribed_cluster is associated with the following gene feature(s):


Feature Name	Unique Name	Type
Csa5G308790	Csa5G308790	gene
Csa5G308800	Csa5G308800	gene

The following EST feature(s) are a part of this transcribed_cluster:


Feature Name	Unique Name	Type
Cuc1_1_E08	Cuc1_1_E08	EST
FKNP3UI02KKJ5R	FKNP3UI02KKJ5R	EST
FKNP3UI02MKDWP	FKNP3UI02MKDWP	EST

InterPro

Analysis Name: InterPro Annotations of cucumber unigene v3
Date Performed: 2016-11-16


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR023179	GTP-binding protein, orthogonal bundle domain	GENE3D	G3DSA:1.10.1580.10		coord: 24..113 score: 1.
None	No IPR available	PANTHER	PTHR11089	GTP-BINDING PROTEIN-RELATED	coord: 2..122 score: 2.5
None	No IPR available	PANTHER	PTHR11089:SF36	GTP-BINDING PROTEIN	coord: 2..122 score: 2.5