rna3950, rna3950 (mRNA) Nannochloropsis gaditana | NanDeSyn: Nannochloropsis Design & Synthesis Initiative

Overview


Name	rna3950
Unique Name	rna3950
Type	mRNA
Organism	Nannochloropsis gaditana (N. gaditana B-31)
Sequence length	3159
Alignment location	CM002462.1:488125..489998 +

Link to JBrowse

Properties


Property Name	Value
Product	pseudouridine family
Orig transcript id	gnl\|cribi\|Naga_100001g174.8215.mrna
Orig protein id	gnl\|cribi\|Naga_100001g174.8215
Gene	RluD
Gbkey	mRNA

Mutants

Expression

No biomaterial libraries express this feature.

Alignments

The following features are aligned


Aligned Feature	Feature Type	Alignment Location
CM002462.1	supercontig	CM002462.1:488125..489998 +

Analyses

This mRNA is derived from or has results from the following analyses


Analysis Name	Date Performed
Gene prediction for N. gaditana B-31	2014-02-18

Annotated Terms

Homology

Relationships

This mRNA is a part of the following gene feature(s):


Feature Name	Unique Name	Species	Type
RluD	gene3801	Nannochloropsis gaditana (N. gaditana B-31)	gene

The following polypeptide feature(s) derives from this mRNA:


Feature Name	Unique Name	Species	Type
rna3950	rna3950-protein	Nannochloropsis gaditana (N. gaditana B-31)	polypeptide

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


Feature Name	Unique Name	Species	Type
EWM26704.1	cds3940	Nannochloropsis gaditana (N. gaditana B-31)	CDS

Sequences

The following sequences are available for this feature:

mRNA sequence
protein sequence
mRNA from alignment at CM002462.1:488125..489998+
coding sequence from alignment at CM002462.1:488125..489998+

mRNA sequence

>rna3950 ID=rna3950|Name=rna3950|organism=Nannochloropsis gaditana|type=mRNA|length=3159bp
ATGAACGAAAATTGCAAGTCTTCTTGCATAGCAGAGGGCGAATCCCCGAA
GCTTGCAGAGATATGTAGCGCACGAGTAGGTAATACGCGTGCGGACTCGC
AAAACGCAAAGACAGCGATTTTAGGCAAAGACTTTCAGATGGGGTTCTCT
GAAGCTCAACTGCAGCACGTGCATGGGGCAGGCGAGACATTGGTCGAGAG
TTGCCGGGACTCGACGCGGTCTTACTCGATGGACAGTTCTGACACGTCGG
AGCACAAGGCTGACGCGGAGCTTGTGCTCTCCTTCCTGACCGAGATGCAC
TCGACCGGTGGGACGGGGCAGCTAAGCAGAGGGAAATGTGAGAGTACGCA
ACCGTCCCAAAAGACTCAAAAACAACCAGAACGAACGTATTTTGAAGAAG
ACAGTAGCGCATGGGCTACTGACGGAGAGTCTCTGCTTCTTTCTCTCAGA
GCCAAAAAGCCCGGGATCGCGTCCTCGTCTTCTTCCTCACAGCTTGCAAC
TCCAGAGACAGTGAGTAAGCAAGGAAGTTTCTCCTCAGAGAGTATATCGA
CTTTATCAGCCCATTATGTAAAGTCTCCTGATAAGTTGATAACAACTTCG
AAGACCGACCCAGGGAGAAAAGATTCGCATGTACGGGGTCCAGCCAGTCC
AGTGGTGGAATGCCATGGCGACGACGAGGATGAAGATGCCGACGCCAAAA
TAATTGTTAGTTTCAGGCACCCATCAGTGTCAAATGCCTCTTTTTCGGAT
TCGGGTTCTGGCGAACTTGCTGCCTCTTCCGAGGAAGAGACAGACATGTG
GGAAGACAACGCGACCAAACCTCGGTCACCACGACATCCTAGAGCCGATT
CCGCCAGTTCCTGGAATCTTTTCAACAGTCTCGTCAATGAGGCAGGAAAC
GGTAGTCGTAAGCTTGAGCGGCAACTCACGCGCACCTATGAATGCCCTTG
GCATCGCGTGGGCTACTATCGACGTTGTCACGACAAGTATGGGCAAGATG
CATCCATTTACGATTCTGAGGATTCAGACTATGAAGAGGCCAGCATAATA
GAGCAACGGGATTCCAGTTCCGGATGCTCTCGAATTTGCGGGGGAAGTGC
TCGAGAATATGGGCCATATACTAGCGAGTTCTCCTCCGTGCGCGCAAATA
TGCTCAATGCAGACAAATCCGCTGACAGAGCCGTGGCCGGTGGCGTGCCC
AAGTACCATCGAGACTGGGGGAGGCTTAAACGACGCGGTACCATGCGCCA
ACAGCAACGACTGAAGAGAGAGGCCCGGGGTCGTATTCCTCCTAATTACA
ACAATGTGACGACCCACGACCGGATCGGGGCTGACGCTGAAGAAGATATG
GAAGTGCGAAAGCACAACAGCGCAGGCGCAACAAATCTCGGCAACCTTAC
AGCTGCGGCTCGTGAGTTTGCTGTTGATCCTCAACGCACCGCTTCCAAAA
AAGAGAAAGTGGCCTCAAATAGCGGTGGCAAGTCCAAAAATGTCCATGGC
AGCAGTGGCTCGCTCAAGAAGAGCAAAATCACTGGGCAATCCGCACCGAA
ACGTCAAAGTACCGCGCTTACCCTCTCATTTGAGGTGCAAGAGAATGGCC
TCATCCGCTGCAAACGCTGTGGTAAACCTAATTTCAAAAACCATTTTGCT
CTCCGCTCTCACCTGTCGCATTGCCCCGGTACCATCCACATGAAGGAGCA
ACGCATGAAGATTGAAGCCGGCCTTTTGCCACCTGAAACGCCTTTATGCC
TCCCTGTGGATGAAGATGAGCGGCAAAAGGGGCCTAGTAACGCAGCTTGG
GTACCTGCATTCAACGTATCAAGCAGTGGCAGCAGTTTGGGTGCCAGCCG
CTCCGTTTCCGGAAGTTTTTCCACCGAGGCGAGCGACCAACCCGCTCCTC
CTACCTTCCAGAGGGCCGACAGCAACAGTCGTAAGACGGCAAGTGAAGAT
CAGGACAGGATGCATGCCTCAACTTCATGTGCGTCAAAATCTGATAACAG
GAATTTCGTTCGGAATGTACCCTTTTCTGATCCACTGCAGCAGCCACCTC
GCGACCCGACAAGTTCAGCCACGGCCAACTCCGCCGGCACGTTCTCCTTC
AAACATGAGATACATACGACAAATACCTCTGCTTCATCTCCACCGGAACC
AACGAGCGATTTACCGGTGCACGAAGGGACAGCTTTGGTGCCTGCTTTCA
TAGCGGACGGTAATTCTTTCGTGGGCCGAGTAGTCTCCTACAAAAATCAT
GGCGCGCGCAACTATGTGGACGTTTACGTGCGGAGCTACCGATCACGGCG
AAACTGTCATTTTGTCGTCTATCCGGATACCACATCCGAATGGGTCATCC
TTACTGACCGAAACTGTCGATGGGACGCTGGTCATCGAGCTAACCTCTCC
GACGCTTCTTCCTCACCGATTCGTCCCGCCGCCGAAAGGAAGGGCATTCT
GACAAGCATTACCGAGTCCACGCACTTTGGAAGCGGCACTCCTAATACTG
CAAGCCCTCGCTCTCCTCCGCGAAATGTATTTTTCAGCGAGCAGGATGCT
CTTCTCCTTCCTCGTCGCCCGCTCAAGCGCAAGGCTGATTCAGTGCGAGA
CGAGGAGGCTTCCAGTACGTCTTTCACCACATTGTCGGAGGAACGTGTGG
CGAGAAAGGGCGAAAAAAGTGATAAAATTGATACGCCCAAGCCGAAAATT
AGGCGTGTCGATAGCAATGAAAGTTTGACAGCAAGCGTGGGGGCACCGGG
CCCGCAACACTATCACTCTCACAATCCAACTCTGCCCTATGCCCAGCACA
TACCTCACCACTCTACTGGTCCTCCTGCCTACCCCTACCACGTCTCCACC
ACCGGCTATACCGCTGCAGAATCCTATGCAATGCAGCTCGCTCAACACAC
ACCAGCCTCCACCTTTATTTGTCGGCGCTGCGCAAAGAGCTTCCATAACA
AGCAAGCTCTGGGCTGGCACACTCGCAAAGGGTGCTATGGGCATCCAGGC
ACGGCCATTACCAATAATTTGCCCTCTCCATTTCCTAATTCATCCGTGAA
TACTCACTCCCATGCTCATTACCCGCCATCAACGAATTACATGTATGGTT
CGCAGGCCTCGCCTGTGCAATCCATGCACCATGCTGCTGACCAGCCCTAT
TCTTACTAG

protein sequence of rna3950

>rna3950-protein ID=rna3950-protein|Name=rna3950|organism=Nannochloropsis gaditana|type=polypeptide|length=568bp
MAKCPPDGTTIAFFSSVHFLIFVMGIYLKTSDGFICPRGGMQRLSLSPCP
QQRTVFAMMAGRKPPWQRRGPDKKQDSEDELWVLEQSLLNGSSPRTSAFV
PSITPTSKTSSSTPEKTDNTLKDTDGNFGTLRDEANITAQFMFVANTSES
LIRVDRLLTQRLKGHSRSSVCDLLDRGFVYVNGSPARKSLKIVEGDEIFV
RQCATNERLAEVEEEDIPLDVLYEDEHVIAVNKAPGMVVHPAPGNRNGTF
VNALLAHVARRGGEIEEVVGSEGRPGVVHRLDKGTSGVLLAAKTARAHAA
LSSAFAERRVNKTYLAISIGNPSSQGAVIDVPIGRHPRDRQRMAVAMQAR
TSHTSSFPGASYAQDAVLNYDGCSEDDQEIGYNSTEGEELLMGRGGNSGN
TPLTGRKARSTVKTLAFDGRLSVVEVGIETGRTHQIRVHLQHRRNPVLGD
ELYGNAQWNARARRRWGVTRPMLHALRLVVDHPVTGDPLRLVAPVPPDML
SVAHGIWPQVKGRENEEWWDMVDRRPSAGDESMTDGKDLIESQQGWEEVV
HDPKAGERVVDEFDWEID

mRNA from alignment at CM002462.1:488125..489998+

Legend: polypeptideCDS

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

>rna3950 ID=rna3950|Name=rna3950|organism=Nannochloropsis gaditana|type=mRNA|length=1874bp|location=Sequence derived from alignment at CM002462.1:488125..489998+ (Nannochloropsis gaditana)
AAAATATCAATCAAGTACGCATTGTAGGATCTTGGCAGCGGTAAAACCGG
CGTTTTAATTGATATCATCACGAAGGCCTCCTTGAGCCAGTCTTTCACAA
CGATGGCAAAGTGTCCTCCCGATGGAACCACAattgcatttttttcttcc
gtcCATTTCCTCATATTTGTAATGGGAATATATTTGAAGACTTCTGATGG
ATTTATTTGTCCTCGGGGTGGTATGCAGCGATTATCCTTGAGTCCCTGCC
CTCAGCAGCGTACGGTGTTTGCTATGATGGCAGGCAGAAAACCACCATGG
CAACGCCGGGGGCCGGATAAGAAGCAAGACTCGGAAGATGAATTGTGGGT
CCTTGAACAGAGCTTATTGAATGGGAGTTCTCCTCGAACATCTGCCTTTG
TTCCGAGCATCACCCCTACTTCAAAAACTTCATCTTCGACCCCCGAAAAG
ACTGACAATACTTTAAAAGATACGGATGGAAATTTTGGGACGCTTCGAGA
TGAAGCAAATATAACAGCACAATTTATGTTCGTCGCGAACACTTCGGAGT
CTTTGATACGCGTGGATCGATTGTTGACTCAGCGACTGAAGGGCCACAGC
CGCAGCTCGGTGTGCGACTTGCTGGACCGCGGCTTCGTCTACGTCAACGG
CAGTCCCGCACGGAAGAGTCTCAAAAttgtggagggcgacgaaATATTTG
TGCGGCAGTGCGCGACAAATGAGAGGTTGgcagaagtggaggaggaggac
atacCTTTGGACGTGTTGTATGAGGACGAACACGTCATCGCCGTGAATAA
AGCCCCGGGCATGGTGGTGCATCCGGCTCCCGGAAATCGGAATGGGACCT
TCGTCAATGCCCTGTTGGCTCACGTGGCTCgtagagggggggaaattgaA
GAGGTTGTCGGAAGCGAGGGTCGTCCAGGCGTGGTGCATCGGTTGGATAA
GGGCACAAGCGGAGTGTTACTTGCGGCCAAAACCGCCCGAGCTCACGCGG
CCCTGTCGTCCGCATTCGCCGAGCGCCGTGTCAACAAGACTTACTTGGCG
ATCAGCATTGGAAATCCGAGCTCACAAGGAGCGGTAATCGACGTGCCCAT
TGGCCGACATCCCAGGGATAGGCAGCGGATGGCTGTGGCCATGCAAGCGC
GCACGTCGCAtacctcttcttttcctggcGCGAGCTATGCCCAGGACGCA
GTGCTGAACTATGACGGGTGCAGTGAGGATGATCAGGAAATTGGGTACAA
TTCgacagagggagaagagctCTTGATGGGCCGCGGGGGAAATTCGGGGA
ACACGCCTTTGACGGGGCGCAAAGCACGCAGCACGGTCAAGACCCTCGCC
TTTGATGGTCGGCTCAGCGTGGTAGAGGTAGGGATTGAAACAGGGCGCAC
GCATCAGATCCGCGTACACCTACAGCACCGCCGGAATCCCGTGCTGGGAG
ATGAACTGTACGGGAATGCTCAGTGGAACGCTCGGGcacggcggcggtgg
ggagTCACTCGACCGATGctgcacgccctccgcctggTGGTGGACCATCC
CGTGACAGGGGACCCTTTGCGTCTTGTCGCACCAGTGCCTCCAGACATGC
TTTCAGTTGCACATGGCATATGGCCCCAAgtaaagggaagagagaatgAG
GAGTGGTGGGATATGGTAGATCGAAGGCCCTCAGCGGGAGACGAAAGTAT
GACGGACGGGAAAGATTTGATTGAATCCCAGcaggggtgggaagaggtAG
TTCATGACCCCAAGGCTGGTGAGAGAGTAGTCGATGAGTTTGACTGGGAG
ATCGATTAAGAAGAAGCTGGAACAGGTCTGAAATGTAAAAAATAAGAAAT
CATACCAAACATAATGAGTGTTGA

Coding sequence (CDS) from alignment at CM002462.1:488125..489998+

>rna3950 ID=rna3950|Name=rna3950|organism=Nannochloropsis gaditana|type=CDS|length=1707bp|location=Sequence derived from alignment at CM002462.1:488125..489998+ (Nannochloropsis gaditana)
ATGGCAAAGTGTCCTCCCGATGGAACCACAattgcatttttttcttccgt
cCATTTCCTCATATTTGTAATGGGAATATATTTGAAGACTTCTGATGGAT
TTATTTGTCCTCGGGGTGGTATGCAGCGATTATCCTTGAGTCCCTGCCCT
CAGCAGCGTACGGTGTTTGCTATGATGGCAGGCAGAAAACCACCATGGCA
ACGCCGGGGGCCGGATAAGAAGCAAGACTCGGAAGATGAATTGTGGGTCC
TTGAACAGAGCTTATTGAATGGGAGTTCTCCTCGAACATCTGCCTTTGTT
CCGAGCATCACCCCTACTTCAAAAACTTCATCTTCGACCCCCGAAAAGAC
TGACAATACTTTAAAAGATACGGATGGAAATTTTGGGACGCTTCGAGATG
AAGCAAATATAACAGCACAATTTATGTTCGTCGCGAACACTTCGGAGTCT
TTGATACGCGTGGATCGATTGTTGACTCAGCGACTGAAGGGCCACAGCCG
CAGCTCGGTGTGCGACTTGCTGGACCGCGGCTTCGTCTACGTCAACGGCA
GTCCCGCACGGAAGAGTCTCAAAAttgtggagggcgacgaaATATTTGTG
CGGCAGTGCGCGACAAATGAGAGGTTGgcagaagtggaggaggaggacat
acCTTTGGACGTGTTGTATGAGGACGAACACGTCATCGCCGTGAATAAAG
CCCCGGGCATGGTGGTGCATCCGGCTCCCGGAAATCGGAATGGGACCTTC
GTCAATGCCCTGTTGGCTCACGTGGCTCgtagagggggggaaattgaAGA
GGTTGTCGGAAGCGAGGGTCGTCCAGGCGTGGTGCATCGGTTGGATAAGG
GCACAAGCGGAGTGTTACTTGCGGCCAAAACCGCCCGAGCTCACGCGGCC
CTGTCGTCCGCATTCGCCGAGCGCCGTGTCAACAAGACTTACTTGGCGAT
CAGCATTGGAAATCCGAGCTCACAAGGAGCGGTAATCGACGTGCCCATTG
GCCGACATCCCAGGGATAGGCAGCGGATGGCTGTGGCCATGCAAGCGCGC
ACGTCGCAtacctcttcttttcctggcGCGAGCTATGCCCAGGACGCAGT
GCTGAACTATGACGGGTGCAGTGAGGATGATCAGGAAATTGGGTACAATT
CgacagagggagaagagctCTTGATGGGCCGCGGGGGAAATTCGGGGAAC
ACGCCTTTGACGGGGCGCAAAGCACGCAGCACGGTCAAGACCCTCGCCTT
TGATGGTCGGCTCAGCGTGGTAGAGGTAGGGATTGAAACAGGGCGCACGC
ATCAGATCCGCGTACACCTACAGCACCGCCGGAATCCCGTGCTGGGAGAT
GAACTGTACGGGAATGCTCAGTGGAACGCTCGGGcacggcggcggtgggg
agTCACTCGACCGATGctgcacgccctccgcctggTGGTGGACCATCCCG
TGACAGGGGACCCTTTGCGTCTTGTCGCACCAGTGCCTCCAGACATGCTT
TCAGTTGCACATGGCATATGGCCCCAAgtaaagggaagagagaatgAGGA
GTGGTGGGATATGGTAGATCGAAGGCCCTCAGCGGGAGACGAAAGTATGA
CGGACGGGAAAGATTTGATTGAATCCCAGcaggggtgggaagaggtAGTT
CATGACCCCAAGGCTGGTGAGAGAGTAGTCGATGAGTTTGACTGGGAGAT
CGATTAA

Synonyms

Publications