CmaCh16G012200 (gene) Cucurbita maxima (Rimu) v1.1

Overview


Name	CmaCh16G012200
Type	gene
Organism	Cucurbita maxima (Cucurbita maxima (Rimu) v1.1)
Description	Ribosomal L28 family
Location	Cma_Chr16: 9225765 .. 9228658 (+)
RNA-Seq Expression	CmaCh16G012200
Synteny	CmaCh16G012200

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonCDSpolypeptidethree_prime_UTR

Hold the cursor over a type above to highlight its positions in the sequence below.

ATGGCCTTTAGAGGAAAGGAAATGATGAAGAAGATATTGAAGAAGGTTGGAGAAAACAATCTTGCGCCTGGAGTGAAGGATTCATTGAAGAAATGTATTCCAGACTCCAAAGTGGTGATGAATAGGGCGAAGCGCGGCATTTTTGCTGGCCGTCACATCCAATTCGGTAACCGTGTCAGTGAAGACGGTGGCAATAAGTATGAACCTCTGTTCTTTCCTTTATTTTTTTCAAAATCTTGCGTCGTTTCTCTCTGAATTCGGTGGCGTGAAACCATTAGTCCCTTTCCCAATATGAGAATAGCTTAACGGTTAAATGATATCATGTTAAGTCCAAACCGCTAGGTGATATTGTTCTCTTTGGACTTTCCCTTTTGAGCTTCCCCTCAAGGTTTTAAGATGCGTCTACTCGGGAGAGGTTTCCACACCCTTGTAAGAAATGTTTCATTCCCCTCTCCAACCAATGTGGGATCTCACAATCCACTCCCTTGGAGGTCAGCATCCTTGCTGACACACTGCCCAGTGTCTGGCTCTGATACCATTTGTAATAGCCTAAGTCCACCGCTAACAAATATTGTCCTCTTTGAGATTTCCCTACTGGGCTTCCCCTCAAGGTTTTAAAATGTGTCTACTATGGAGAGGTTTCCACACCCTTGTAAGAAATGTTTCATTCCCCTCTCCGATCAATGTGGGATCTCACAATCCACCCCCTTGGAGGTCAGCGTTTTCACTGACACACCGCCTAGTGTCTGACTTTAATACCATTTGTAATAGCCTAAGCCCACCGCTAACAGATCTTGTCTTCTTTGAGATTTCCCTGCTGTGCTTCCTCTCAAGGTTTTAAAATGTGTCTACTAGGGAGAGGTTTCCACACCCTTGTAAGGAATGTTTCGTTTCCCTCTCCAACCAATGTGGGATCTCATAATCCACCCCCTTGGAGGTTAGCGTCCTAGCTGACACACGGCCCGATGTCTGGCTCTTATACCATTTGTAATAGCCTAAGCCCACCGCTAGCAGATATTGTCCTATTTGGGATTTCTTTGTTGGACTTCCCCTCAAGGGTTTAAAACGCGTCTACTAGGGAGAAGTTTTCACACCCTTATAAGGAATGTTTCGTTCTCCTCTTCAACCAATGTGGGATTTCACACATCAACCTCTACCCTTTTTTTTCTTCGAACTAGTTCAAATTTCCACACCCACACCCAAAAAAAAAAAAATAATAATAATAAGAGAGAGATCTTTAGTCCCTTTTAATTGCATAGCTTGATTTATTGTTTTTTACAATTGCAAGTGAAGGCGCCATAAATGAATAAATTCATAGCATCAAAGACATTTGGCAGAAAATTCTTGCTGTTACTATTTCAAAACTTACGTCTTTGTGTTCATGCTTCTGATTTTTTCTTATCTGTTTGTTACTGCCTTCTTGATGAGTGTTTGGATTTTGGATGCGGGGTTAGCATATGAGTTAATTGTTCTGCTAAAACTCTTATCCACACTACTTGATTACGAATTGTAGTTAGAATCAAGTGGAGATTTTGTAATTGCTTTGCTCTGAGGTTTTTATGCCCCACTCCTTTTGTCATTCTAAGAACATGTGGAGGAACCCTAAGATAGGGTGATTGGGGGCGTAAAGTTGGGCTTCAGCGCGTGTCTCGCTTCCTAAGCCCAACAGCCCCGACCCTCTGTTTGACATCCCAAGTTCAATTAGAGAAACCAACTGACTCGAACAACATCCTACTATTCAACCCCTCCATCGATCACTATTTCAACCCAAGCTTCCTAAACTTGTGCCCCCAAATACAGAACCTGTGAACCCAAATGATCCATTAGAAGTTGGGAAGAGAAAATGTACTTATAGTTGTGTTTCCTTCTGTGTGTGAACGTTATTGGCTTTTGCTGTATATTTGTAGCCTTATATTTACATGTCAAGGGTATGCCTCTCTTGCTCTTGTATTCAGAAATTCGAGAGCACAATATAATAATTTCGTTTTCTTCCTTTGTTTCGGCCTTATGTCATATAAGGGTTCGGTGCGTTTTACGATTATTTACGATTATTTTGTCATGCTATCAATTTTCAATTTTGGAGTATTAGCCGTAATGTGCTGGTGCTTATAGGTCAAGAAGGAGCTGGAAACCAAATGTCCAAGAGAAGCGACTTTTCAGTTATATTCTAGACCGCCATATTCGAGTTAAAGTCACCACTCATGCCCTTCGATGCATCGACAAGGCCGGTGGAATTGATGAGTATCTGCTGAAAACTCCATACCACAAAATGGACACTGAAATTGGGCTGTTTTGGAAGGCAAAAATCGAGAAGCTGTACGAAGAACTCGGGCAGATGGAGGTCGTTTTCTTCTCACCAGAGGACGAAGCTAAATTTGAACAGGGCTTTAGAGACCTGAAATTATCCGAGAGGGCAGCACGAAAGGAGACGAGAAGACGGATGTATGGTAGTTCGACCCAACGTGATCAGATCGAAGAGGGACAAGCAGACCGCGTTGGATCTAGTGAGGAAGTTGCAGGTTCCGAAGGAGGCTCCCATGGTGATGATATGGTCCACAGCAATGGGTTGCCAACGCCTAATTAATTATAGGACTTTTTTTCCAACCAAGGAGTTCAAGCCTCGACTCGTTCCCTACCTTTTCCAAGATTTGTTTCCTCTCATTTTCACTTGGTTTAATGTTTAATGTATTCAGATAGAAATGAGAATTGTTTTTTGGAAATTGAGATGTGAAATCTTAGAACCATTTATTGTTCAATAAGATTGGCTTAATGTATGAAAAAGATCGTCTCATATTTTGTACTACCCTATCACTCAGAAGATGGGGATGGGGAAGGCTTTTGGTCCTTCTCTTTCCATGTACATCTCTTTTTCTATATCCATCGCTACATGATCA

mRNA sequence

ATGGCCTTTAGAGGAAAGGAAATGATGAAGAAGATATTGAAGAAGGTTGGAGAAAACAATCTTGCGCCTGGAGTGAAGGATTCATTGAAGAAATGTATTCCAGACTCCAAAGTGGTGATGAATAGGGCGAAGCGCGGCATTTTTGCTGGCCGTCACATCCAATTCGGTAACCGTGTCAGTGAAGACGGTGGCAATAAGTCAAGAAGGAGCTGGAAACCAAATGTCCAAGAGAAGCGACTTTTCAGTTATATTCTAGACCGCCATATTCGAGTTAAAGTCACCACTCATGCCCTTCGATGCATCGACAAGGCCGGTGGAATTGATGAGTATCTGCTGAAAACTCCATACCACAAAATGGACACTGAAATTGGGCTGTTTTGGAAGGCAAAAATCGAGAAGCTGTACGAAGAACTCGGGCAGATGGAGGTCGTTTTCTTCTCACCAGAGGACGAAGCTAAATTTGAACAGGGCTTTAGAGACCTGAAATTATCCGAGAGGGCAGCACGAAAGGAGACGAGAAGACGGATGTATGGTAGTTCGACCCAACGTGATCAGATCGAAGAGGGACAAGCAGACCGCGTTGGATCTAGTGAGGAAGTTGCAGGTTCCGAAGGAGGCTCCCATGGTGATGATATGGTCCACAGCAATGGGTTGCCAACGCCTAATTAATTATAGGACTTTTTTTCCAACCAAGGAGTTCAAGCCTCGACTCGTTCCCTACCTTTTCCAAGATTTGTTTCCTCTCATTTTCACTTGGTTTAATGTTTAATGTATTCAGATAGAAATGAGAATTGTTTTTTGGAAATTGAGATGTGAAATCTTAGAACCATTTATTGTTCAATAAGATTGGCTTAATGTATGAAAAAGATCGTCTCATATTTTGTACTACCCTATCACTCAGAAGATGGGGATGGGGAAGGCTTTTGGTCCTTCTCTTTCCATGTACATCTCTTTTTCTATATCCATCGCTACATGATCA

Coding sequence (CDS)

ATGGCCTTTAGAGGAAAGGAAATGATGAAGAAGATATTGAAGAAGGTTGGAGAAAACAATCTTGCGCCTGGAGTGAAGGATTCATTGAAGAAATGTATTCCAGACTCCAAAGTGGTGATGAATAGGGCGAAGCGCGGCATTTTTGCTGGCCGTCACATCCAATTCGGTAACCGTGTCAGTGAAGACGGTGGCAATAAGTCAAGAAGGAGCTGGAAACCAAATGTCCAAGAGAAGCGACTTTTCAGTTATATTCTAGACCGCCATATTCGAGTTAAAGTCACCACTCATGCCCTTCGATGCATCGACAAGGCCGGTGGAATTGATGAGTATCTGCTGAAAACTCCATACCACAAAATGGACACTGAAATTGGGCTGTTTTGGAAGGCAAAAATCGAGAAGCTGTACGAAGAACTCGGGCAGATGGAGGTCGTTTTCTTCTCACCAGAGGACGAAGCTAAATTTGAACAGGGCTTTAGAGACCTGAAATTATCCGAGAGGGCAGCACGAAAGGAGACGAGAAGACGGATGTATGGTAGTTCGACCCAACGTGATCAGATCGAAGAGGGACAAGCAGACCGCGTTGGATCTAGTGAGGAAGTTGCAGGTTCCGAAGGAGGCTCCCATGGTGATGATATGGTCCACAGCAATGGGTTGCCAACGCCTAATTAA

Protein sequence

MAFRGKEMMKKILKKVGENNLAPGVKDSLKKCIPDSKVVMNRAKRGIFAGRHIQFGNRVSEDGGNKSRRSWKPNVQEKRLFSYILDRHIRVKVTTHALRCIDKAGGIDEYLLKTPYHKMDTEIGLFWKAKIEKLYEELGQMEVVFFSPEDEAKFEQGFRDLKLSERAARKETRRRMYGSSTQRDQIEEGQADRVGSSEEVAGSEGGSHGDDMVHSNGLPTPN

Homology

[Close]

BLAST of CmaCh16G012200 vs. ExPASy Swiss-Prot
Match: P36525 (54S ribosomal protein L24, mitochondrial OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) OX=559292 GN=MRPL24 PE=1 SV=2)

HSP 1 Score: 71.6 bits (174), Expect = 1.2e-11
Identity = 36/88 (40.91%), Postives = 53/88 (60.23%), Query Frame = 0


Query: 30  KKCIPDSKV----VMNRAKRGIFAGRHIQFGNRVSEDGGNKSRRSWKPNVQEKRLFSYIL 89
           +K  PD K     +  ++ +G++ G  +QFGN +SE    K+R+ W PNV +K L+S  L
Sbjct: 52  RKKFPDYKYGESNIFKQSNKGLYGGSFVQFGNNISESKA-KTRKKWLPNVVKKGLWSETL 111

Query: 90  DRHIRVKVTTHALRCIDKAGGIDEYLLK 114
           +R I +K+T   L+ I K GGID YL K
Sbjct: 112 NRKISIKMTAKVLKTISKEGGIDNYLTK 138

[Close]

BLAST of CmaCh16G012200 vs. ExPASy Swiss-Prot
Match: A0L5U1 (50S ribosomal protein L28 OS=Magnetococcus marinus (strain ATCC BAA-1437 / JCM 17883 / MC-1) OX=156889 GN=rpmB PE=3 SV=1)

HSP 1 Score: 66.6 bits (161), Expect = 4.0e-10
Identity = 32/71 (45.07%), Postives = 46/71 (64.79%), Query Frame = 0


Query: 43  AKRGIFAGRHIQFGNRVSEDGGNKSRRSWKPNVQEKRLFSYILDRHIRVKVTTHALRCID 102
           A++    G+  Q GN+VS     K+RR W PN+Q K L+S  L + ++V ++T ALR +D
Sbjct: 2   ARKRTLGGKAPQAGNKVSH-SQRKTRRQWMPNIQTKALWSITLGQSVKVTISTSALRSVD 61

Query: 103 KAGGIDEYLLK 114
            AGG+D YLLK
Sbjct: 62  NAGGLDNYLLK 71

[Close]

BLAST of CmaCh16G012200 vs. ExPASy Swiss-Prot
Match: A9HS05 (50S ribosomal protein L28 OS=Gluconacetobacter diazotrophicus (strain ATCC 49037 / DSM 5601 / CCUG 37298 / CIP 103539 / LMG 7603 / PAl5) OX=272568 GN=rpmB PE=3 SV=1)

HSP 1 Score: 63.9 bits (154), Expect = 2.6e-09
Identity = 32/80 (40.00%), Postives = 50/80 (62.50%), Query Frame = 0


Query: 43  AKRGIFAGRHIQFGNRVSEDGGNKSRRSWKPNVQEKRLFSYILDRHIRVKVTTHALRCID 102
           ++R    G+ +  GN VS    NKSRR + PN+QE  L S IL   +R++++T+ +R ++
Sbjct: 2   SRRCQITGKGVLTGNNVSH-ANNKSRRRFLPNLQETSLLSDILGSAVRLRLSTNGIRTVE 61

Query: 103 KAGGIDEYLLKTPYHKMDTE 123
             GG+D +LL TP  K+ TE
Sbjct: 62  HNGGLDAFLLSTPNRKLPTE 80

[Close]

BLAST of CmaCh16G012200 vs. ExPASy Swiss-Prot
Match: Q5FUP5 (50S ribosomal protein L28 OS=Gluconobacter oxydans (strain 621H) OX=290633 GN=rpmB PE=3 SV=1)

HSP 1 Score: 63.2 bits (152), Expect = 4.4e-09
Identity = 32/80 (40.00%), Postives = 49/80 (61.25%), Query Frame = 0


Query: 43  AKRGIFAGRHIQFGNRVSEDGGNKSRRSWKPNVQEKRLFSYILDRHIRVKVTTHALRCID 102
           ++R    G+ +  GN VS    NKSRR + PN+QE  L S IL   +R++++T  +R ++
Sbjct: 2   SRRCQITGKGVLTGNNVSH-ANNKSRRRFLPNLQETTLISDILGASVRMRLSTDGIRTVE 61

Query: 103 KAGGIDEYLLKTPYHKMDTE 123
             GG+D +LL TP  K+ TE
Sbjct: 62  HNGGLDSFLLGTPNRKLPTE 80

[Close]

BLAST of CmaCh16G012200 vs. ExPASy Swiss-Prot
Match: O60091 (54S ribosomal protein L24, mitochondrial OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=mrpl24 PE=3 SV=1)

HSP 1 Score: 61.6 bits (148), Expect = 1.3e-08
Identity = 28/74 (37.84%), Postives = 45/74 (60.81%), Query Frame = 0


Query: 41  NRAKRGIFAGRHIQFGNRVSEDGGNKSRRSWKPNVQEKRLFSYILDRHIRVKVTTHALRC 100
           ++ ++ ++ G   + GN      G+K+RR W PN   K L+S +L+    + VT+  LR 
Sbjct: 25  SKFQQNLYGGSKTEAGNNKIPKFGHKTRRVWIPNGHSKWLYSNVLEEKFHLYVTSRVLRT 84

Query: 101 IDKAGGIDEYLLKT 115
           IDK GG+DEYL+K+
Sbjct: 85  IDKEGGLDEYLVKS 98

[Close]

BLAST of CmaCh16G012200 vs. TAIR 10
Match: AT4G31460.1 (Ribosomal L28 family )

HSP 1 Score: 283.5 bits (724), Expect = 1.5e-76
Identity = 142/208 (68.27%), Postives = 166/208 (79.81%), Query Frame = 0


Query: 1   MAFRGKEMMKKILKKVGENNLAPGVKDSLKKCIPDSKVVMNRAKRGIFAGRHIQFGNRVS 60
           MAFRGKEMMKK++KKVG  N+ P +K+ LK C+PD+KVVM RAKRG++AGRHIQ+GNRVS
Sbjct: 1   MAFRGKEMMKKLVKKVGAENITPELKEKLKACVPDTKVVMGRAKRGLYAGRHIQYGNRVS 60

Query: 61  EDGGNKSRRSWKPNVQEKRLFSYILDRHIRVKVTTHALRCIDKAGGIDEYLLKTPYHKMD 120
           EDGGNKSRR WKPNVQEKRLFSYI D HI+VKVTTHALRCIDKAGGIDEYLLKTPY KMD
Sbjct: 61  EDGGNKSRRCWKPNVQEKRLFSYIFDSHIKVKVTTHALRCIDKAGGIDEYLLKTPYQKMD 120

Query: 121 TEIGLFWKAKIEKLYEELGQMEVVFFSPEDEAKFEQGFRDLKLSERAARKETRR--RMYG 180
           TE+GL+WK K+E  Y ELGQMEV FF+PEDEAK EQGF+DL ++++ AR+E RR  R  G
Sbjct: 121 TEMGLYWKTKVEARYAELGQMEVAFFNPEDEAKLEQGFKDLNIAKKDARREARRTFRKKG 180

Query: 181 SSTQRDQIEEGQADRVGSSEEVAGSEGG 207
              + D  EE   +  G SE     + G
Sbjct: 181 GGNKGD--EEASIEGGGGSESHQEDDNG 206

The following BLAST results are available for this feature:

BLAST of CmaCh16G012200 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
P36525	1.2e-11	40.91	54S ribosomal protein L24, mitochondrial OS=Saccharomyces cerevisiae (strain ATC...	[more]
A0L5U1	4.0e-10	45.07	50S ribosomal protein L28 OS=Magnetococcus marinus (strain ATCC BAA-1437 / JCM 1...	[more]
A9HS05	2.6e-09	40.00	50S ribosomal protein L28 OS=Gluconacetobacter diazotrophicus (strain ATCC 49037...	[more]
Q5FUP5	4.4e-09	40.00	50S ribosomal protein L28 OS=Gluconobacter oxydans (strain 621H) OX=290633 GN=rp...	[more]
O60091	1.3e-08	37.84	54S ribosomal protein L24, mitochondrial OS=Schizosaccharomyces pombe (strain 97...	[more]

BLAST of CmaCh16G012200 vs. TAIR 10


Match Name	E-value	Identity	Description
AT4G31460.1	1.5e-76	68.27	Ribosomal L28 family	[more]

InterPro

Analysis Name: InterPro Annotations of Cucurbita maxima (Rimu) v1.1
Date Performed: 2021-10-25


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR026569	Ribosomal protein L28/L24	PFAM	PF00830	Ribosomal_L28	coord: 46..104 e-value: 2.4E-19 score: 69.2
IPR026569	Ribosomal protein L28/L24	PANTHER	PTHR13528	39S RIBOSOMAL PROTEIN L28, MITOCHONDRIAL	coord: 1..198
IPR037147	Ribosomal protein L28/L24 superfamily	GENE3D	2.30.170.40	Ribosomal protein L28/L24	coord: 47..118 e-value: 8.0E-22 score: 79.0
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 169..194
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 169..222
None	No IPR available	PANTHER	PTHR13528:SF11	BNAC03G67590D PROTEIN	coord: 1..198
IPR001383	Ribosomal protein L28	HAMAP	MF_00373	Ribosomal_L28	coord: 42..110 score: 14.283021
IPR034704	L28p-like	SUPERFAMILY	143800	L28p-like	coord: 43..119

Relationships

The following mRNA feature(s) are a part of this gene:


Feature Name	Unique Name	Type
CmaCh16G012200.1	CmaCh16G012200.1	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0006412	translation
cellular_component	GO:0016021	integral component of membrane
cellular_component	GO:0005762	mitochondrial large ribosomal subunit
cellular_component	GO:0005840	ribosome
molecular_function	GO:0003735	structural constituent of ribosome