rna3978, rna3978 (mRNA) Nannochloropsis gaditana | NanDeSyn: Nannochloropsis Design & Synthesis Initiative

Overview


Name	rna3978
Unique Name	rna3978
Type	mRNA
Organism	Nannochloropsis gaditana (N. gaditana B-31)
Sequence length	1878
Alignment location	CM002462.1:543634..546807 +

Link to JBrowse

Properties


Property Name	Value
Product	Pentatricopeptide repeat containining protein
Orig transcript id	gnl\|cribi\|Naga_100001g141.8241.mrna
Orig protein id	gnl\|cribi\|Naga_100001g141.8241
Gbkey	mRNA
Note	encoded by transcript variant 2; alternatively spliced

Mutants

Expression

No biomaterial libraries express this feature.

Alignments

The following features are aligned


Aligned Feature	Feature Type	Alignment Location
CM002462.1	supercontig	CM002462.1:543634..546807 +

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
Naga_100001g141	gene3827	Nannochloropsis gaditana (N. gaditana B-31)	gene

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


Feature Name	Unique Name	Species	Type
rna3978	rna3978-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
EWM26730.1	cds3968	Nannochloropsis gaditana (N. gaditana B-31)	CDS

Sequences

The following sequences are available for this feature:

mRNA sequence
protein sequence
mRNA from alignment at CM002462.1:543634..546807+
coding sequence from alignment at CM002462.1:543634..546807+

mRNA sequence

>rna3978 ID=rna3978|Name=rna3978|organism=Nannochloropsis gaditana|type=mRNA|length=1878bp
ATGCGTTCCAACGATGCCATGAGGGTACTACAAGGTGCCACTTTGGTGGT
TGAGAATATGATGCGTGAGAATGTGAATGCACCACGCAGAATGGTCTCTC
AGTTTTTGGACACAGCACAGAATGTGGCGGGTCGTTCTCCAGACATGTCG
AAAGAGGGTTTGCACAAAATTGTGCGGCCTGACCCGCCAGCTTCCGGGGA
AGATTTTCCTAGCGGCAAGACCACTTCGTCCTATTTTTCTGAGCAAGCCA
ATAGCAGCTCGACAACCTCTTCCATGGCAGCAAAAACGTCTGATGCAGAA
CCTGTTGGGCCACCGACTGCATCTGGGCCTGTCTCTTCACGAAATTACGA
GGCGCAAACACGCCCTCTTCTAGCCCGCACTCGGGAGGAAGACTCGTCTC
TCCTGAAGATGAGCACGGAGGCCTCCTCGAGCCAAGAAGCCCTTCGCCAA
GCCCTGGCGGATTCTGAAACGGTTGTCGCACCCTTTAGAGATTCCCCTTT
ACCGAAATATGAGCAGAAGGAGCGGTCTGTGCCCGCCTCACCTCTCTCCC
GCGTTTTGGGGTTTGGTAGTCTGGCAGCTCGTCTTGCCGTGACTGGGGCC
TACGAGGCTGTCCGGAGGCAAATAGTCATGACGGCCTCGGATCAGGAGGC
GCCAGGATCTTCCTCTGCTGAAGCAAGGCCTCGAACGCTCTTGTCTGACA
GAAGCGCCGAGCACATTGCAGAGACCCTGTGCAAGATGCGAGGCGCCGCA
CTGAAGCTCGGGCAGATGATGAGCTTACAGGACGAAGGAATTCTTCCAGA
GCCGTTGACGAAGGCCTTGGAGCGAGTACGACAGGGTGCGGACGTGATGC
CGCGTGCGCAACTGCACGCTCAACTGGAGGCAGAGCTGGGAGCGGGTTGG
CGAGCGCGGTTCCGCACATTCGGCGAGAAACCCGTGGCGGCGGCCTCCAT
CGGGCAGGTGCACCGGGCTCGGACGATTGATGGGCGCGATGTCGCGGTGA
AAGTACAATATCCTGGCGTGGGTGATTCCATCGAGAGCGACTTGAAAAAC
CTCAAGAGACTGGTCACGTACCTGAACGTCCTGCCGCCAGGACTGTACGT
GGACGAAATCTTGGACGTGGCACGAGAGGAGCTAATACTAGAGTGTGACT
ACAAGCTAGAGGCACAAAATCAAGAGCGATTCAAACTTCTGGTGGAATCG
GACCCGGCACTCGTACCGCATGTGTTAGTCCCTGGCGTAGTGTCGGACTT
GAGCAGCCGCCAAGTGCTCACATCCGAGTGGATGACGGGGGAGCCCGTCG
ACCGCGTCGTTGCCCTAGATCAGGACATTCGAAACCGCGTCGCACGACTT
ATTTTGTTATTGACTCTTAGAGAGCTCTTTGATTGGCGATTCATGCAGAC
AGATCCCAACTGGTCCAATTTCTTGTATGACAGGAGCACGGGAAAGTTGG
CCCTCTTGGATTTCGGGGCCTCAAGAAGCTACCAGAAGGCATTTGTGGAC
AAGTATTTGGAGCTAGTGTGGGCAGCCGCTAATCGTGACACGTCGAAACT
TATGATTGCTAGCCATCAATTGGGATTTTTGACAGGTGATGAGTCAACTC
AAATGCTGCGCGCACACGAGAGCGCCGGGCTTGTCGTAGGCGAACCCTTC
GTAAATCACGAGCCGTTCGACTTTCACGGAAGCAACATGACTGTGCGAAT
ATCGCATCACGGCAAAACATTCATGAATCATCGCCTTACTCCCCCACCTC
GAGAAGCCTACTCTCTACACCGGAAGCTCGCGGGAGCATTTCTGCTCTGT
ATCAAGCTAAAAGCTGTAATTCCATGCCGAGATTTGCTGGAGGAAACTCA
CAAGATGTATACTGAAAATAAACTATGA

protein sequence of rna3978

>rna3978-protein ID=rna3978-protein|Name=rna3978|organism=Nannochloropsis gaditana|type=polypeptide|length=857bp
MFGILLNEFISFLFVGNTLPKIETDSASMVPRKKRRKCCSIRTAPLALCM
IIYSLLLLSLQLCVKAYSTLPLCGSGDKIRFVRRLRKEGRKRDIGILCSP
SCSTLRVMQVTMSSPAPFFSERRRAITTGSESCHSVELLTPSAGRIRRFR
AERGRQLENELARIEAAGARAGLDLYIKALRSCAKLGKVDVAMMLLRQMQ
EQPAGPRRVPATPLLAFNLVLEAAAKAQDRDVALSVYNEMLCGVGEKAAT
GPASPGVGVNVFTYGQLLSLFAKLADGRAALDILEEMAAQGVKGNAFTYT
SAIDACERAGLLYETERLLREMKDRGVMPTAVTYNTIIARRAERVDTWTE
ALDWLAKLEASGIQPLRSSYAAAINACERAEEWELVVELTERAEELADTT
MWSRSLSAMLRLGRHESVLATFRQLREEKTIPVDEVMYTLALKACALGHR
PFHEARALLMDMRTSGLTPNVVTFSAAMEACGGDTDSNGAPNWEMALEVL
REMKAQGVEPSTVTYSTLMDILTDSGQWQRALHIFMTLEREEDQAEVPKT
VWLYTAAIRACAKGQQIDTAIALLREVTTDPSAHGAPDLCLFTAALDACE
KVGDGPLALQLLDEMSRDHNIIVDDVACGVVISACRKAGLVGDCLRLLAF
MLNHRLAPNLGVYNTVLGALCSQPEYLDKAIEVLHFLKASQPSSSSNLNL
RSKPSRTPRPNAQSFSQVIDALADALRWEDALSLLQEMRNVGHRPEVLTC
AKVVAACEKKQRWKEALHLLDEMRKDDYSFYELELLDQVFKKLVGVAAAG
LRSISGGAADSTSETARAATDSGREGQGESMDNDDSSLHPELLNREKKDD
RVPKARR

mRNA from alignment at CM002462.1:543634..546807+

Legend: polypeptideCDS

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

>rna3978 ID=rna3978|Name=rna3978|organism=Nannochloropsis gaditana|type=mRNA|length=3174bp|location=Sequence derived from alignment at CM002462.1:543634..546807+ (Nannochloropsis gaditana)
GAAGCGTCGCTCCcagcgagggaggtgagCATGAGCACAGAGCAGGAATT
GGATATCACTCGGCTGCGTTTTGCTTGCCCATAAATAGGTAGCATGTCGA
GCAAAACGTATGGCTGATTGACAAGTCACCGCGCTGAGGTATCTACACGT
CACTGATGAAGTTATCGCATTCTGTTCGGCTTCAATGTATTCCAAACCAG
CACGTTTTCTGCTGCACATTGACGCTCATCATTCTTGCTGCAATATTGTA
ACATGGAGCGAAAAAGGAAGCATTCGTTTTTAAGCAGTGGCCCGTCGAAA
GTCAGTGCCGGTTTTTGTCAGCCATCCGCCGTCAGTGTTGCGTGGTAAAT
GCGGCCAGTCACAGGTTGAGCGTGATGCGGCCGAGTGGTATCTATTCTTC
TTATGCATTACTCGTGATCGTGTCTTACCCTGCTGAGGATTgtgtgggtg
ggagggacaagaTGTGTGTTCCAATATGCACACACACTTCTTTCCAAATG
TTTGACTTGCTTCACCAAATTACATGTTTGGCATTCTTCTGAATGAATTT
ATTTCCTTCTTATTTGTAGGGAACACCCTGCCCAAGATCGAGACGGACTC
GGCTTCGATGGTGCCcagaaaaaagaggaggaagtgctgCAGTATACGCA
CAGCGCCACTAGCTCTTTGCATGATAATTTATAGTTTACTGTTATTGTCG
CTGCAACTATGTGTCAAAGCCTATTCCACTCTGCCTTTGTGTGGCAGCGG
CGACAAAATCAGATTTGTTCGGCGGCTtcgaaaagaagggaggaagagag
ataTCGGCATCCTATGCAGTCCCTCATGTAGTACTTTACGAGTCATGCAA
GTCACCATGTCCTCACCTGCTCCGTTTTTCTCTGAAAGACGGAGAGCAAT
CACAACCGGCAGCGAGTCGTGTCACTCCGTGGAGCTTTTGACTCCGTCTG
CTGGTAGAATAAGACGGTTCCGAGCAGAGCGTGGGCGTCAATTAGAAAAT
GAACTTGCACGTATCGAAGCTGCCGGCGCGAGGGCTGGCTTGGACTTGTA
CATTAAAGCACTGCGGTCTTGTGCCAAATTAGGAAAAGTTGACGTGGCTA
TGATGCTGCTTCGGCAGATGCAAGAGCAGCCCGCCGGCCCAAGACGTGTA
CCAGCGACCCCTTTGTTAGCCTTCAACCTAGTGTTAGAGGCCGCTGCTAA
AGCTCAGGACAGGGATGTGGCTCTGAGCGTGTATAATGAAATGCTTTGTG
GCGTCGGTGAGAAGGCAGCGACAGGTCCGGCATCCCCTGGTGTCGGAGTA
AATGTTTTCACTTACGGCCAACTCTTGTCCTTATTCGCGAAATTGGCGGA
TGGACGAGCAGCCTTGGATATTTTGGAAGAAATGGCTGCCCAGGGTGTTA
AGGGAAATGCCTTCACGTACACCTCGGCCATCGATGCCTGCGAGCGAGCA
GGATTGCTCTATGAGACAGAAAGACTGTTaagggagatgaaggatCGCGG
CGTGATGCCCACGGCGGTCACATATAACACCATTATTGCCCGACGTGCAG
AGCGTGTCGATACTTGGACAGAGGCTTTGGACTGGCTGGCAAAGCTGGAA
GCTTCTGGCATTCAGCCGTTGAGATCCTCTTACGCGGCGGCAATAAATGC
ATGTGAGAGGGCCGAGGAGTGGGAGCTTGTAGTGGAATTGACAGAGCGAG
CAGAGGAGCTGGCAGATACGACGATGTGGTCACGAAGCCTGTCTGCAATG
CTGCGACTTGGGAGGCACGAGTCTGTGTTGGCAACTTTCCGGCAGCTACG
CGAGGAGAAAACCATACCAGTCGACGAGGTTATGTACACACTGGCTCTCA
AGGCCTGCGCCCTGGGCCATCGACCTTTCCATGAGGCGCGGGCGCTGTTG
ATGGACATGCGGACATCGGGCCTCACGCCGAATGTTGTGACATTTTCTGC
AGCCATGGAGGCGTGTGGCGGGGACACGGATTCGAACGGCGCGCCAAACT
GGGAAATGGCTCTAGAGGTGCTGAGAGAGATGAAAGCACAGGGAGTGGAA
CCTAGTACTGTCACCTACTCAACTTTGATGGACATACTGACCGATTCGGG
ACAATGGCAGCGCGCTTTGCACATCTTCATGACGCTAGAGCGAGAAGAAG
ACCAGGCAGAGGTTCCCAAGACAGTGTGGCTTTACACCGCTGCCATCCGC
GCCTGCGCTAAGGGTCAACAGATCGACACAGCGATTGCCCTTCTTCGTGA
AGTCACGACAGATCCTTCTGCCCACGGTGCACCCGATCTCTGCCTCTTTA
CAGCGGCACTTGACGCCTGCGAGAAAGTTGGCGATGGCCCTCTTGCGCTT
CAGCTTTTGGACGAAATGTCTCGAGACCACAACATAATCGTTGATGACGT
GGCTTGTGGTGTAGTCATCAGTGCCTGTCGCAAGGCGGGCCTCGTTGGCG
ACTGTTTGCGACTCTTGGCTTTTATGCTGAATCATCGCCTGGCCCCCAAC
CTGGGAGTCTACAACACCGTCTTGGGTGCGCTCTGCAGTCAGCCCGAGTA
TCTCGACAAGGCTATAGAAGTGCTACATTTTTTGAAGGCCTCTCAGCCGT
CCAGTAGCTCGAACTTAAATCTTAGAAGCAAGCCATCTCGGACCCCGCGG
CCGAACGCTCAAAGTTTTAGTCAAGTGATAGATGCCTTGGCCGACGCTTT
GCGTTGGGAGGACGCTTTATCTCTCCTTCAGGAAATGCGCAACGTAGGAC
ACAGACCCGAGGTTCTAACTTGCGCCAAGGTTGTTGCGGCCTGCGAGAAG
AAGCAGCGATGGAAAGAGGCGTTGCACTTATTGGATGAGATGCGTAAAGA
CGACTACTCATTTTATGAACTTGAGCTACTCGACCAGGTTTTCAAAAAAC
TTGTCGGTGTGGCTGCTGCCGGTCTTCGATCAATATCGGGTGGGGCAGCA
GATAGTACCTCGGAAACAGCCCGGGCGGCGACAGATtcaggacgggaagg
acagggagagagCATGGACAATGATGACTCGTCCTTGCATCCGGAACTTC
TTAACcgagaaaagaaagacgACCGGGTACCAAAAGCACGGAGGTGAACC
AACAATTGTGAATTTACTCATTAAAAATGTAAGGATAAAGAATAAATTAA
CGGCCAAATGGCATCATTTTGCCA

Coding sequence (CDS) from alignment at CM002462.1:543634..546807+

>rna3978 ID=rna3978|Name=rna3978|organism=Nannochloropsis gaditana|type=CDS|length=2574bp|location=Sequence derived from alignment at CM002462.1:543634..546807+ (Nannochloropsis gaditana)
ATGTTTGGCATTCTTCTGAATGAATTTATTTCCTTCTTATTTGTAGGGAA
CACCCTGCCCAAGATCGAGACGGACTCGGCTTCGATGGTGCCcagaaaaa
agaggaggaagtgctgCAGTATACGCACAGCGCCACTAGCTCTTTGCATG
ATAATTTATAGTTTACTGTTATTGTCGCTGCAACTATGTGTCAAAGCCTA
TTCCACTCTGCCTTTGTGTGGCAGCGGCGACAAAATCAGATTTGTTCGGC
GGCTtcgaaaagaagggaggaagagagataTCGGCATCCTATGCAGTCCC
TCATGTAGTACTTTACGAGTCATGCAAGTCACCATGTCCTCACCTGCTCC
GTTTTTCTCTGAAAGACGGAGAGCAATCACAACCGGCAGCGAGTCGTGTC
ACTCCGTGGAGCTTTTGACTCCGTCTGCTGGTAGAATAAGACGGTTCCGA
GCAGAGCGTGGGCGTCAATTAGAAAATGAACTTGCACGTATCGAAGCTGC
CGGCGCGAGGGCTGGCTTGGACTTGTACATTAAAGCACTGCGGTCTTGTG
CCAAATTAGGAAAAGTTGACGTGGCTATGATGCTGCTTCGGCAGATGCAA
GAGCAGCCCGCCGGCCCAAGACGTGTACCAGCGACCCCTTTGTTAGCCTT
CAACCTAGTGTTAGAGGCCGCTGCTAAAGCTCAGGACAGGGATGTGGCTC
TGAGCGTGTATAATGAAATGCTTTGTGGCGTCGGTGAGAAGGCAGCGACA
GGTCCGGCATCCCCTGGTGTCGGAGTAAATGTTTTCACTTACGGCCAACT
CTTGTCCTTATTCGCGAAATTGGCGGATGGACGAGCAGCCTTGGATATTT
TGGAAGAAATGGCTGCCCAGGGTGTTAAGGGAAATGCCTTCACGTACACC
TCGGCCATCGATGCCTGCGAGCGAGCAGGATTGCTCTATGAGACAGAAAG
ACTGTTaagggagatgaaggatCGCGGCGTGATGCCCACGGCGGTCACAT
ATAACACCATTATTGCCCGACGTGCAGAGCGTGTCGATACTTGGACAGAG
GCTTTGGACTGGCTGGCAAAGCTGGAAGCTTCTGGCATTCAGCCGTTGAG
ATCCTCTTACGCGGCGGCAATAAATGCATGTGAGAGGGCCGAGGAGTGGG
AGCTTGTAGTGGAATTGACAGAGCGAGCAGAGGAGCTGGCAGATACGACG
ATGTGGTCACGAAGCCTGTCTGCAATGCTGCGACTTGGGAGGCACGAGTC
TGTGTTGGCAACTTTCCGGCAGCTACGCGAGGAGAAAACCATACCAGTCG
ACGAGGTTATGTACACACTGGCTCTCAAGGCCTGCGCCCTGGGCCATCGA
CCTTTCCATGAGGCGCGGGCGCTGTTGATGGACATGCGGACATCGGGCCT
CACGCCGAATGTTGTGACATTTTCTGCAGCCATGGAGGCGTGTGGCGGGG
ACACGGATTCGAACGGCGCGCCAAACTGGGAAATGGCTCTAGAGGTGCTG
AGAGAGATGAAAGCACAGGGAGTGGAACCTAGTACTGTCACCTACTCAAC
TTTGATGGACATACTGACCGATTCGGGACAATGGCAGCGCGCTTTGCACA
TCTTCATGACGCTAGAGCGAGAAGAAGACCAGGCAGAGGTTCCCAAGACA
GTGTGGCTTTACACCGCTGCCATCCGCGCCTGCGCTAAGGGTCAACAGAT
CGACACAGCGATTGCCCTTCTTCGTGAAGTCACGACAGATCCTTCTGCCC
ACGGTGCACCCGATCTCTGCCTCTTTACAGCGGCACTTGACGCCTGCGAG
AAAGTTGGCGATGGCCCTCTTGCGCTTCAGCTTTTGGACGAAATGTCTCG
AGACCACAACATAATCGTTGATGACGTGGCTTGTGGTGTAGTCATCAGTG
CCTGTCGCAAGGCGGGCCTCGTTGGCGACTGTTTGCGACTCTTGGCTTTT
ATGCTGAATCATCGCCTGGCCCCCAACCTGGGAGTCTACAACACCGTCTT
GGGTGCGCTCTGCAGTCAGCCCGAGTATCTCGACAAGGCTATAGAAGTGC
TACATTTTTTGAAGGCCTCTCAGCCGTCCAGTAGCTCGAACTTAAATCTT
AGAAGCAAGCCATCTCGGACCCCGCGGCCGAACGCTCAAAGTTTTAGTCA
AGTGATAGATGCCTTGGCCGACGCTTTGCGTTGGGAGGACGCTTTATCTC
TCCTTCAGGAAATGCGCAACGTAGGACACAGACCCGAGGTTCTAACTTGC
GCCAAGGTTGTTGCGGCCTGCGAGAAGAAGCAGCGATGGAAAGAGGCGTT
GCACTTATTGGATGAGATGCGTAAAGACGACTACTCATTTTATGAACTTG
AGCTACTCGACCAGGTTTTCAAAAAACTTGTCGGTGTGGCTGCTGCCGGT
CTTCGATCAATATCGGGTGGGGCAGCAGATAGTACCTCGGAAACAGCCCG
GGCGGCGACAGATtcaggacgggaaggacagggagagagCATGGACAATG
ATGACTCGTCCTTGCATCCGGAACTTCTTAACcgagaaaagaaagacgAC
CGGGTACCAAAAGCACGGAGGTGA

Synonyms

Publications