rna5558, rna5558 (mRNA) Nannochloropsis gaditana | NanDeSyn: Nannochloropsis Design & Synthesis Initiative

Overview


Name	rna5558
Unique Name	rna5558
Type	mRNA
Organism	Nannochloropsis gaditana (N. gaditana B-31)
Sequence length	1732
Alignment location	CM002466.1:283615..286296 +

Link to JBrowse

Properties


Property Name	Value
Product	violaxanthin de-epoxidase
Orig transcript id	gnl\|cribi\|Naga_100016g50.2936.mrna
Orig protein id	gnl\|cribi\|Naga_100016g50.2936
Gbkey	mRNA

Mutants

Expression

No biomaterial libraries express this feature.

Alignments

The following features are aligned


Aligned Feature	Feature Type	Alignment Location
CM002466.1	supercontig	CM002466.1:283615..286296 +

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_100016g50	gene5371	Nannochloropsis gaditana (N. gaditana B-31)	gene

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


Feature Name	Unique Name	Species	Type
rna5558	rna5558-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
EWM25127.1	cds5544	Nannochloropsis gaditana (N. gaditana B-31)	CDS

Sequences

The following sequences are available for this feature:

mRNA sequence
protein sequence
mRNA from alignment at CM002466.1:283615..286296+
coding sequence from alignment at CM002466.1:283615..286296+

mRNA sequence

>rna5558 ID=rna5558|Name=rna5558|organism=Nannochloropsis gaditana|type=mRNA|length=1732bp
GCGTTATCACACTCTTTGAATACATCTTTGAAATATGTATATTTTGTTAG
GGGAGAAATACAATACTCGGTGGGAAAACTTGCCGATCATACGTTTGTGG
CTTCATATGCCCCGAGGGGTGGCGTAACAGAATACTTCATGCCATTTCCG
AAGCGGGACATTCCTTGGCTCTTCGGATAAAAAAGCGAAATTTCTGGAGC
TTGCCGCGCAGCAATGCGCCTGATTGGATGCTGATTGTAGCACAAGGCTG
GACGTTTTTAACCCATTATGACGCTCTCCGTCGCGCAAGCTGAAAATATG
CTAAAGCGGCAGCTCGAGGAGCGTAAGCGAGGCCCCAGCTATGGTCGCCT
ACCGCGACAAGTGACCATTTGCGGAGGTGGGAACGGAGCGCATGTTTGTG
CTGGATTTTTAGCCTGGAAAGGTATAAAAGTGAACGTCTTGACACGCCGA
CCCCGTGAATGGGCTCCATCCATCGAGATCATCACGCAAAGTTCCTCGTG
GGAGGCGAAAGGGACGTTTGCGGGGACCTTACATGTGGTCAGTGACGAGG
CGTCTCGCGTCGTTCCAGGTTCGGAGTACGTCATAATTGCGGCACCCGCA
AATGCACATCCGGCTCTTTTGACCAAGGTGGCGCCGCATCTCGATTTCGG
GGCAAAGATCGGAGCTTTGTTTGCTCAAGGAGGCTTCGATTGGGCTGTAA
AGCATGCGTTCGGGACTGAGAAGATTAAGCGAATCGGTGTCATGTTCGGT
CTACAAAATATACCGTGGATCTGCAAAGCCGTCAAATATGGCCATTCTGC
ACGTATCTTAGGACCCAAGAAGGGGCTGTGGGTTGCCACCTACCCAGTAG
AGGCTCGCGACGCGACTGCTCGCGACCTGGAGAGCATGTTTGATATCCCC
TGTCACACTTTGCCGAACTTCTTGAATCTGACCCTCACTCCGTCGAACCA
GATTATTCACCCAGCCCGCTATTACGCAATTTTTCGCGACTGGGACGGCA
AGCGAAGCTACAGTAGGCGCGAGCTGGAGGCCAGGGAGGGCCTTACGCTG
TACAAGGGGATGGATGAGTACTCAGCGGAGTGTCTCGCTACCCTGGACAA
CGAGCTGCAACAGATTAAATTCGCCCTTCTTCAGCAGTTTCCCCAGCTTG
ACTTGTCTTACGTCATGCCTATAGGGGAGCGAATCGTCAATCAGTACGGT
GATGACGTCACCAATAGATCCTCCCTTCGTCAAATTTTTCGCAGCAATAG
AGGGTACTCGTCTTGCCTGACGCCTCTAAAGGAGCAAAGCCCGGGGCGAT
ATCAGCCGCTGGTGGAGTCAAGGCTCTTTTGGGAAGACATACCTTATGGC
TTGGTCATCCTCAAGAACCTGGTGGAGCTCCTCGGCAACTTCCCGACTCC
AGCCATCGACTTCATGATTCGGTGGCACCAGACGTTTATGAAGAAGGACT
ACTTGCTGAGCGACAACCAGCTCAATCCGCGCCTGCTCCACGAGACGGGG
GCACCCTGTAAATACGGCATCCATCGGGTAGAGGAGATCGTTGAGACTTG
TCTGCCGCGCGAGCTCTTGGGGTACCGTCATCCTCGCTCGCGCATGTAGT
TGTTTGTATCCCATTTATTTGCCCGCACCATCCGCGGCTAAAACTTGGTG
TGTATATCTATTTTTGAAAGTACTCAATGGCGAAAAATGATGTTCATAGA
TTGATCGAAAGAAAAAGCATTTAAATTACCGA

protein sequence of rna5558

>rna5558-protein ID=rna5558-protein|Name=rna5558|organism=Nannochloropsis gaditana|type=polypeptide|length=605bp
MPLLCPCSGENKKEVMRDKVHQGREEIIRTKRRRRGRRRTMLSYTLAINV
VLSMVVFGLMLGGSAFVIPRCSIRVRPRIVSAMTMTMAENRARISKQNCA
FREHDVGYEERKGKRSITQPARLSSDTSHTPDIAITIVHHLRSYLPKVAL
LILSGGWMGVSGGGILNGPGPLYPARAENELAQYAKEGNKVGVDPKCFVQ
KCSLPTHDCLNNPDCLKGLSCLSKCKGEGTCSTACFAKYGNRVLDDFLHC
AVEQQDCVHVPRDRSRATWTDPDAVGLDKRSSPTFEIRSLNGRWYKVMGM
DARYDCFDCQVNHFTPKPGAPNIMLADVSFRMPRPRAPGFWENHVTEEML
GDGPGARRSMHSVGRMFGLTFWENWYVIGENSPEDVGLPDYKFVFYTGHT
LQGNYEGAFVYARTPELPPELMPAVSQVARANGLDPSKFCKIRNTCFRPD
SSSFVAASSVRESAGTAHKPGAPPSSWAGVKSWITARALWLPEQISQLVT
AMNQELGDWFEDPTTTSDWLIKQQERMVMVTDEAPTGRVQVIASRPGSAA
GDTDGSAKTAGPAPPVNAATITAFTAQMEKGQSSSTDRGGFLPAFIDISA
EKIPQ

mRNA from alignment at CM002466.1:283615..286296+

Legend: polypeptideCDS

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

>rna5558 ID=rna5558|Name=rna5558|organism=Nannochloropsis gaditana|type=mRNA|length=2682bp|location=Sequence derived from alignment at CM002466.1:283615..286296+ (Nannochloropsis gaditana)
GCTGCTAGCTAAGCGCGGTCTGGTATGTACCTTTCCACTTCAATGAGCCT
GGCtgctgggagggggaggtaacCAACCCCGTTTTTCTCGAAAAATGAAG
CACGAGTTGCCAATCTTTGTCAATACCACGATTCGCGGTTGTGGCAGCTG
CTGGCTTGTGTTTTCGTTCGGGATGCCCGCATTTGTGGACGCGCTCAGTC
CCCAAGCACCCGTACCTCACGATCCTTCTCGACCACATTCGCCCGTGCTC
GTTATGACAGGAGCGTCTCAACACTTAAAGTATCCGTGTTCGCGCACTCA
CAATCAATCGAAACGCAATATTTGAGGAGGGACGTCAGTGGTGGATTGGT
GTGGTTGGAGAAAAGGTGTCAGGTAGCCATGCCTCTCCTATGCCCTTGCT
CAGGGGAGAACAAAAAGGAAGTCATGAGAGACAAGGTGCAtcaaggcagg
gaggaaataaTAAGAACTAAACGGAGGCGACGTGGGCGGAGAAGAACCAT
GCTATCCTATACACTCGCCATAAATGTGGTCTTGAGCATGGTAAGTCGAA
AATTTTGGGGTTCTTGCTCTTGAATTGTGAGAACCCAAGCATCTGGCTCA
AGTTGACGCTGCATCGTGTGCTCTTGATCGCATGCAACCAGTTTTACTTT
TAAAACCAAACTCTCATTGCAACCTTTGTACTTTTTTTATACTTCTTGTA
ATCAATGAAAAAACTGAATAGGTGGTGTTTGGCCTCATGCTCGGCGGTTC
AGCCTTCGTCATCCCCCGTTGCTCGATTCGAGTTCGGCCGAGAATCGTCA
GCGCAATGACAATGACGATGGCCGAAAATAGAGCGCGGATTAGCAAGCAA
AATTGCGCATTTCGAGAACATGACGTAGGTtatgaggaaagaaaaggaaa
gcgaagCATCACGCAGCCTGCCAGACTGTCATCGGACACATCACACACAC
CGGATATAGCTATCACCATTGTGCACCATCTCCGAAGCTATCTTCCTAAG
GTGGCCTTGTTGATATTGAGTGGAGGCTGGATGGGCgtcagtggaggagg
aattctCAACGGTCCAGGACCATTATACCCGGCTCGCGCAGAAAATGAGC
TAGCACAGTATGCGAAAGAGGGGAATAAGGTCGGTGTCGACCCAAAATGT
TTTGTACAAAAGTGCTCCTTGCCCACGCATGACTGTTTGAACAATCCCGA
TTGCCTGAAGGGCCTTTCCTGTCTGTCCAAGTGCAAGGGCGAGGGGACGT
GCTCGACGGCCTGTTTTGCCAAATACGGCAACCGCGTGCTGGACGACTTT
CTGCACTGCGCGGTGGAGCAGCAGGACTGCGTACACGTGCCACGGGATCG
CTCTCGAGCCACCTGGACGGACCCCGACGCTGTGGGCCTGGATAAGCGGA
GCTCGCCCACCTTCGAGATCCGGTCTCTTAACGGCCGGTGGTACAAGGTC
ATGGGGATGGACGCGCGCTACGACTGCTTCGACTGCCAGGTGAACCACTT
CACGCCCAAGCCAGGGGCGCCGAACATCATGCTTGCCGATGTCTCCTTCC
GcatgccccgcccccgcgctCCCGGCTTCTGGGAGAACCACGTGACAGAG
GAGATGCTGGGGGACGGGCCCGGCGCCCGGCGATCCATGCACTCGGTCGG
CCGCATGTTTGGCCTCACATTTTGGGAGAATTGGTACGTGATCGGAGAGA
ATTCgccggaggacgtggggctGCCGGACTACAAGTTCGTTTTCTACACG
GGCCACACCCTCCAAGGGAATTATGAGGGTGCCTTCGTCTACGCCCGCAC
GCCCGAGCTTCCCCCGGAGCTAATGCCGGCTGTCTCTCAAGTGGCGCGTG
CCAACGGTCTCGACCCCTCCAAATTCTGCAAAATCCGCAACACGTGCTTC
AGGCCAGACAGCTCTTCCTTCGTTGCTGCCTCATCCGTCAGGGAGTCGGC
CGGAACAGCCCATAAGCCTGGggcgccaccctcctcttgggcTGGGGTCA
AAAGTTGGATCACGGCCCGCGCCCTCTGGTTGCCGGAGCAGATCTCCCAG
CTGGTGACCGCCATGAATCAGGAGCTGGGCGACTGGTTCGAGGACCCCAC
CACTACCAGCGACTGGCTCATCAAGCAGCAGGAGCGAATGGTCATGGTCA
CGGACGAGGCTCCCACAGGCAGGGTCCAAGTCATTGCCAGTCGGCCAGGG
AGTGCCGCTGGCGATACGGATGGCAGCGCCAAGACAGCTGGTCCTGCGCC
TCCTGTGAACGCCGCAACGATCACTGCGTTCACGGCTCagatggagaaag
ggcaaagcagcagcaccgaTAGAGGCGGGTTTCTGCCGGCATTCATCGAC
ATTTCGGCCGAGAAAATACCTCAATAGTATTCCGCTGGCTGACCTTAGAC
TAGACTGGCCAATTGATGTGTGGATTGTCGTGTGGCGCGTGTCCAGTATC
GCTTTGACTGTTTTTTATAATTCGTAAACCCTTTTTGACTCCATTGTCTA
TCGATTAGAGAGAATCCCCAACATCCAGCCCGGGACTCCAAATAACTGAA
GAACAACAATGACCATTTGTATGTAGAAGACAACTTAAGAATTGAATGCC
GCACGACAAGTTTCATTCCGAAATTATGAAAAGCACGCATCACGACGCCT
GTGATAGTTATGCAGATCAAGAGCGCATGTTC

Coding sequence (CDS) from alignment at CM002466.1:283615..286296+

>rna5558 ID=rna5558|Name=rna5558|organism=Nannochloropsis gaditana|type=CDS|length=3636bp|location=Sequence derived from alignment at CM002466.1:283615..286296+ (Nannochloropsis gaditana)
ATGCCTCTCCTATGCCCTTGCTCAGGGGAGAACAAAAAGGAAGTCATGAG
AGACAAGGTGCAtcaaggcagggaggaaataaTAAGAACTAAACGGAGGC
GACGTGGGCGGAGAAGAACCATGCTATCCTATACACTCGCCATAAATGTG
GTCTTGAGCATGGTGGTGTTTGGCCTCATGCTCGGCGGTTCAGCCTTCGT
CATCCCCCGTTGCTCGATTCGAGTTCGGCCGAGAATCGTCAGCGCAATGA
CAATGACGATGGCCGAAAATAGAGCGCGGATTAGCAAGCAAAATTGCGCA
TTTCGAGAACATGACGTAGGTtatgaggaaagaaaaggaaagcgaagCAT
CACGCAGCCTGCCAGACTGTCATCGGACACATCACACACACCGGATATAG
CTATCACCATTGTGCACCATCTCCGAAGCTATCTTCCTAAGGTGGCCTTG
TTGATATTGAGTGGAGGCTGGATGGGCgtcagtggaggaggaattctCAA
CGGTCCAGGACCATTATACCCGGCTCGCGCAGAAAATGAGCTAGCACAGT
ATGCGAAAGAGGGGAATAAGGTCGGTGTCGACCCAAAATGTTTTGTACAA
AAGTGCTCCTTGCCCACGCATGACTGTTTGAACAATCCCGATTGCCTGAA
GGGCCTTTCCTGTCTGTCCAAGTGCAAGGGCGAGGGGACGTGCTCGACGG
CCTGTTTTGCCAAATACGGCAACCGCGTGCTGGACGACTTTCTGCACTGC
GCGGTGGAGCAGCAGGACTGCGTACACGTGCCACGGGATCGCTCTCGAGC
CACCTGGACGGACCCCGACGCTGTGGGCCTGGATAAGCGGAGCTCGCCCA
CCTTCGAGATCCGGTCTCTTAACGGCCGGTGGTACAAGGTCATGGGGATG
GACGCGCGCTACGACTGCTTCGACTGCCAGGTGAACCACTTCACGCCCAA
GCCAGGGGCGCCGAACATCATGCTTGCCGATGTCTCCTTCCGcatgcccc
gcccccgcgctCCCGGCTTCTGGGAGAACCACGTGACAGAGGAGATGCTG
GGGGACGGGCCCGGCGCCCGGCGATCCATGCACTCGGTCGGCCGCATGTT
TGGCCTCACATTTTGGGAGAATTGGTACGTGATCGGAGAGAATTCgccgg
aggacgtggggctGCCGGACTACAAGTTCGTTTTCTACACGGGCCACACC
CTCCAAGGGAATTATGAGGGTGCCTTCGTCTACGCCCGCACGCCCGAGCT
TCCCCCGGAGCTAATGCCGGCTGTCTCTCAAGTGGCGCGTGCCAACGGTC
TCGACCCCTCCAAATTCTGCAAAATCCGCAACACGTGCTTCAGGCCAGAC
AGCTCTTCCTTCGTTGCTGCCTCATCCGTCAGGGAGTCGGCCGGAACAGC
CCATAAGCCTGGggcgccaccctcctcttgggcTGGGGTCAAAAGTTGGA
TCACGGCCCGCGCCCTCTGGTTGCCGGAGCAGATCTCCCAGCTGGTGACC
GCCATGAATCAGGAGCTGGGCGACTGGTTCGAGGACCCCACCACTACCAG
CGACTGGCTCATCAAGCAGCAGGAGCGAATGGTCATGGTCACGGACGAGG
CTCCCACAGGCAGGGTCCAAGTCATTGCCAGTCGGCCAGGGAGTGCCGCT
GGCGATACGGATGGCAGCGCCAAGACAGCTGGTCCTGCGCCTCCTGTGAA
CGCCGCAACGATCACTGCGTTCACGGCTCagatggagaaagggcaaagca
gcagcaccgaTAGAGGCGGGTTTCTGCCGGCATTCATCGACATTTCGGCC
GAGAAAATACCTCAATAGATGCCTCTCCTATGCCCTTGCTCAGGGGAGAA
CAAAAAGGAAGTCATGAGAGACAAGGTGCAtcaaggcagggaggaaataa
TAAGAACTAAACGGAGGCGACGTGGGCGGAGAAGAACCATGCTATCCTAT
ACACTCGCCATAAATGTGGTCTTGAGCATGGTGGTGTTTGGCCTCATGCT
CGGCGGTTCAGCCTTCGTCATCCCCCGTTGCTCGATTCGAGTTCGGCCGA
GAATCGTCAGCGCAATGACAATGACGATGGCCGAAAATAGAGCGCGGATT
AGCAAGCAAAATTGCGCATTTCGAGAACATGACGTAGGTtatgaggaaag
aaaaggaaagcgaagCATCACGCAGCCTGCCAGACTGTCATCGGACACAT
CACACACACCGGATATAGCTATCACCATTGTGCACCATCTCCGAAGCTAT
CTTCCTAAGGTGGCCTTGTTGATATTGAGTGGAGGCTGGATGGGCgtcag
tggaggaggaattctCAACGGTCCAGGACCATTATACCCGGCTCGCGCAG
AAAATGAGCTAGCACAGTATGCGAAAGAGGGGAATAAGGTCGGTGTCGAC
CCAAAATGTTTTGTACAAAAGTGCTCCTTGCCCACGCATGACTGTTTGAA
CAATCCCGATTGCCTGAAGGGCCTTTCCTGTCTGTCCAAGTGCAAGGGCG
AGGGGACGTGCTCGACGGCCTGTTTTGCCAAATACGGCAACCGCGTGCTG
GACGACTTTCTGCACTGCGCGGTGGAGCAGCAGGACTGCGTACACGTGCC
ACGGGATCGCTCTCGAGCCACCTGGACGGACCCCGACGCTGTGGGCCTGG
ATAAGCGGAGCTCGCCCACCTTCGAGATCCGGTCTCTTAACGGCCGGTGG
TACAAGGTCATGGGGATGGACGCGCGCTACGACTGCTTCGACTGCCAGGT
GAACCACTTCACGCCCAAGCCAGGGGCGCCGAACATCATGCTTGCCGATG
TCTCCTTCCGcatgccccgcccccgcgctCCCGGCTTCTGGGAGAACCAC
GTGACAGAGGAGATGCTGGGGGACGGGCCCGGCGCCCGGCGATCCATGCA
CTCGGTCGGCCGCATGTTTGGCCTCACATTTTGGGAGAATTGGTACGTGA
TCGGAGAGAATTCgccggaggacgtggggctGCCGGACTACAAGTTCGTT
TTCTACACGGGCCACACCCTCCAAGGGAATTATGAGGGTGCCTTCGTCTA
CGCCCGCACGCCCGAGCTTCCCCCGGAGCTAATGCCGGCTGTCTCTCAAG
TGGCGCGTGCCAACGGTCTCGACCCCTCCAAATTCTGCAAAATCCGCAAC
ACGTGCTTCAGGCCAGACAGCTCTTCCTTCGTTGCTGCCTCATCCGTCAG
GGAGTCGGCCGGAACAGCCCATAAGCCTGGggcgccaccctcctcttggg
cTGGGGTCAAAAGTTGGATCACGGCCCGCGCCCTCTGGTTGCCGGAGCAG
ATCTCCCAGCTGGTGACCGCCATGAATCAGGAGCTGGGCGACTGGTTCGA
GGACCCCACCACTACCAGCGACTGGCTCATCAAGCAGCAGGAGCGAATGG
TCATGGTCACGGACGAGGCTCCCACAGGCAGGGTCCAAGTCATTGCCAGT
CGGCCAGGGAGTGCCGCTGGCGATACGGATGGCAGCGCCAAGACAGCTGG
TCCTGCGCCTCCTGTGAACGCCGCAACGATCACTGCGTTCACGGCTCaga
tggagaaagggcaaagcagcagcaccgaTAGAGGCGGGTTTCTGCCGGCA
TTCATCGACATTTCGGCCGAGAAAATACCTCAATAG

Synonyms

Publications