TCONS_00054708 (transcript) - C. hemisphaerica

Overview
NameTCONS_00054708
Unique NameTCONS_00054708
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length486

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00054708 ID=TCONS_00054708|Name=TCONS_00054708|organism=Clytia hemisphaerica|type=transcript|length=486bp
aaaagaatgatAAAGTTTATTTTGCTAGTAAACAAGCAAGGTCATACCCG
ATTTTCTAATTACTATGATGAAAGTATCAAAAGAGAGGAAAGGAGTTGGA
TTGAAGCTGAAATTGTTCGCAAATGTCTAACAAGGAATGAAAAACAGtGC
TCATTTTTGGAATATCGAAATTACAGAGTTGTATACAGACGATATgcttc
attatttttcattgttGGAATCGATGAAAAAGAGAATGAATTAGCGATTT
ACGAGTTCATACACAACCTAGTTGAAATTTTGGATCGTTACTTTCGAGGA
GTGGTAAGAATTATAATcacacttgatttttcaatttgtttgatacatct
tttcgaccgtagccaccaattgccgcgcgggtattttttttgtccgcttt
atcccactaaaaccgtcccagtccttttttcgcacctatagacaatagaa
aaatgtgtcaaaaaaggattggatcgagtttagtgg
Run BLAST on NCBI

protein sequence of TCONS_00054708-protein

>TCONS_00054708-protein ID=TCONS_00054708-protein|Name=TCONS_00054708-protein|organism=Clytia hemisphaerica|type=polypeptide|length=146bp
KRMIKFILLVNKQGHTRFSNYYDESIKREERSWIEAEIVRKCLTRNEKQC
SFLEYRNYRVVYRRYASLFFIVGIDEKENELAIYEFIHNLVEILDRYFRG
VVRIIITLDFSICLIHLFDRSHQLPRGYFFCPLYPTKTVPVLFSHL
Run BLAST on NCBI

transcript from alignment at scaffold_244:38579..39931+

Legend: exonCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00054708 ID=TCONS_00054708|Name=TCONS_00054708|organism=Clytia hemisphaerica|type=transcript|length=1353bp|location=Sequence derived from alignment at scaffold_244:38579..39931+ (Clytia hemisphaerica)
aaaagaatgatAAAGTTTATTTTGCTAGTAAACAAGCAAGGTCATACCCG
ATTTTCTAATTACTATGATGAAAGTATCAAAAGAGAGGAAAGGAGTTGGA
TTGAAGCTGAAATTGTTCGCAAATGTCTAACAAGGAATGAAAAACAGGTA
TACCCAATGGCGCACACCTCAGTTAATGGGCTATTAATCCCATCCTCATT
TCTGTCCTTTAAAGCTTTTACATTTTAAACAAACTTTATTAAGTAATAAT
TGCAATTTGCTACTGTAGTTGTTATCTAATTGTGTgatgtttttttaatc
tttaGTCTTTAAAGTGTTTTAAGTGAGCGAGATTATGATTAATATATCCT
TTAAACACCGACTCGGCGGGACCTCTTCCCAACTAGAAATCTGGCCAAGA
TTTCAATCCTACTGGAGAAATACCCTATAATTTAGCCCACctaggaaatt
gactttgatttcatccccattcgaaattgaACGGAAATAATTTCACTCTA
AAACCAGGGGCTATGAGGGGCTATCTTACAGGACGTCAATGAGAAAGGGG
TATCTTAAAGGACGTATTTCATTTCATCTCATCTAACCTCTACATCACTT
TGATTCCAATGTTTACTGCTTAAacacgttttatttttttactagtGCTC
ATTTTTGGAATATCGAAATTACAGAGTTGTATACAGACGATATgcttcat
tatttttcattgttGGAATCGATGAAAAAGAGGTAAATTTCTATCATTCA
TTATGAAAATCTTATTATAATAAGTAATCAGTCAAGGCTACTAAAAACTT
CACTGCTATttaagtaaaaattttctttgattacTTATGTATTAGCAAGA
CAGTAATCTTtttgcaccaaaaaaagtttgGTTGATTAAGAATTATGATT
TATGCTTTACGTTTGAGATTAACGAATTTTCAGTGTGAACGGACAGATGA
ATAATTTTTACTTGTTGATTATATTCATCTCCTTTCTCCTTTTTCCTTTT
GTTATGATTCAAAGTTTTGACCACTATCGCAAATGGGCTCGGATAACTTT
TCAATCGCTTTGTTGGTTTTCTacgtttttattttactttccaTCATACA
GAATGAATTAGCGATTTACGAGTTCATACACAACCTAGTTGAAATTTTGG
ATCGTTACTTTCGAGGAGTGGTAAGAATTATAATcacacttgatttttca
atttgtttgatacatcttttcgaccgtagccaccaattgccgcgcgggta
ttttttttgtccgctttatcccactaaaaccgtcccagtccttttttcgc
acctatagacaatagaaaaatgtgtcaaaaaaggattggatcgagtttag
tgg

Coding sequence (CDS) from alignment at scaffold_244:38579..39931+

>TCONS_00054708 ID=TCONS_00054708|Name=TCONS_00054708|organism=Clytia hemisphaerica|type=CDS|length=1323bp|location=Sequence derived from alignment at scaffold_244:38579..39931+ (Clytia hemisphaerica)
aaaagaatgatAAAGTTTATTTTGCTAGTAAACAAGCAAGGTCATACCCG
ATTTTCTAATTACTATGATGAAAGTATCAAAAGAGAGGAAAGGAGTTGGA
TTGAAGCTGAAATTGTTCGCAAATGTCTAACAAGGAATGAAAAACAGtGC
TCATTTTTGGAATATCGAAATTACAGAGTTGTATACAGACGATATgcttc
attatttttcattgttGGAATCGATGAAAAAGAGAATGAATTAGCGATTT
ACGAGTTCATACACAACCTAGTTGAAATTTTGGATCGTTACTTTCGAGGA
GTGGTAAGAATTATAATcacacttgatttttcaatttgtttgatacatct
tttcgaccgtagccaccaattgccgcgcgggtattttttttgtccgcttt
atcccactaaaaccgtcccagtccttttttcgcacctatagaaaagaatg
atAAAGTTTATTTTGCTAGTAAACAAGCAAGGTCATACCCGATTTTCTAA
TTACTATGATGAAAGTATCAAAAGAGAGGAAAGGAGTTGGATTGAAGCTG
AAATTGTTCGCAAATGTCTAACAAGGAATGAAAAACAGtGCTCATTTTTG
GAATATCGAAATTACAGAGTTGTATACAGACGATATgcttcattattttt
cattgttGGAATCGATGAAAAAGAGAATGAATTAGCGATTTACGAGTTCA
TACACAACCTAGTTGAAATTTTGGATCGTTACTTTCGAGGAGTGGTAAGA
ATTATAATcacacttgatttttcaatttgtttgatacatcttttcgaccg
tagccaccaattgccgcgcgggtattttttttgtccgctttatcccacta
aaaccgtcccagtccttttttcgcacctatagaaaagaatgatAAAGTTT
ATTTTGCTAGTAAACAAGCAAGGTCATACCCGATTTTCTAATTACTATGA
TGAAAGTATCAAAAGAGAGGAAAGGAGTTGGATTGAAGCTGAAATTGTTC
GCAAATGTCTAACAAGGAATGAAAAACAGtGCTCATTTTTGGAATATCGA
AATTACAGAGTTGTATACAGACGATATgcttcattatttttcattgttGG
AATCGATGAAAAAGAGAATGAATTAGCGATTTACGAGTTCATACACAACC
TAGTTGAAATTTTGGATCGTTACTTTCGAGGAGTGGTAAGAATTATAATc
acacttgatttttcaatttgtttgatacatcttttcgaccgtagccacca
attgccgcgcgggtattttttttgtccgctttatcccactaaaaccgtcc
cagtccttttttcgcacctatag
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_034469XLOC_034469Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00054708-proteinTCONS_00054708-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00054708-exon-scaffold_244-1491911889:38579..38725TCONS_00054708-exon-scaffold_244-1491911889:38579..38725Clytia hemisphaericaexon
TCONS_00054708-exon-scaffold_244-1510915933:38579..38725TCONS_00054708-exon-scaffold_244-1510915933:38579..38725Clytia hemisphaericaexon
TCONS_00054708-exon-scaffold_244-1575043694:38579..38725TCONS_00054708-exon-scaffold_244-1575043694:38579..38725Clytia hemisphaericaexon
TCONS_00054708-exon-scaffold_244-1491911889:39224..39310TCONS_00054708-exon-scaffold_244-1491911889:39224..39310Clytia hemisphaericaexon
TCONS_00054708-exon-scaffold_244-1510915933:39224..39310TCONS_00054708-exon-scaffold_244-1510915933:39224..39310Clytia hemisphaericaexon
TCONS_00054708-exon-scaffold_244-1575043694:39224..39310TCONS_00054708-exon-scaffold_244-1575043694:39224..39310Clytia hemisphaericaexon
TCONS_00054708-exon-scaffold_244-1491911889:39680..39931TCONS_00054708-exon-scaffold_244-1491911889:39680..39931Clytia hemisphaericaexon
TCONS_00054708-exon-scaffold_244-1510915933:39680..39931TCONS_00054708-exon-scaffold_244-1510915933:39680..39931Clytia hemisphaericaexon
TCONS_00054708-exon-scaffold_244-1575043694:39680..39931TCONS_00054708-exon-scaffold_244-1575043694:39680..39931Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
scaffold_244supercontigscaffold_244:38579..39931 +
Expression

Hover the mouse over a column in the graph to view expression values in transcripts per million (tpm).
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Values : 
    GrOo_1	 GrOo_2	 FGOo_1	 FGOo_2	 EG_1	 EG_2	 P1_1	 P1_2	 P2_1	 P2_2	 P3_1	 P3_2	 PoPr_1	 PoPr_2	 St_1	 St_2	 GO_1	 GO_2	 PH_1	 PH_2	 BMF_1	 BMF_2	 MMF_1	 MMF_2	 M_1	 M_2	 GEC_1	 GEC_2	 GEN_1	 GEN_2
4.17837	4.21113	4.01142	3.97001	6.2542	3.31607	5.30216	3.47752	7.47781	10.109	8.08463	7.14038	7.44552	8.53582	4.64186	7.42224	6.13903	6.15261	3.55194	3.64082	10.8068	7.92058	8.59926	8.8183	3.03693	4.87713	9.40807	10.3063	5.39089	8.01933
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR022775AP_mu_sigma_su
IPR011012Longin-like_dom
Vocabulary: Biological Process
TermDefinition
GO:0006810transport
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0006810 transport
Blast
[Close]
BLAST of TCONS_00054708 vs. Swiss-Prot (Human)
Match: AP4S1 (AP-4 complex subunit sigma-1 OS=Homo sapiens GN=AP4S1 PE=2 SV=1)

HSP 1 Score: 107.842 bits (268), Expect = 1.814e-29
Identity = 57/109 (52.29%), Postives = 85/109 (77.98%), Query Frame = 1 
Query:    7 MIKFILLVNKQGHTRFSNYYDESIKREERSWIEAEIVRKCLTRNEKQCSFLEXXXXXXXXXXXASLFFIVGIDEKENELAIYEFIHNLVEILDRYFRGV--VRIIITLD 327
            MIKF L+VNKQG TR S YY E +   +R+ +E E+++ CL+R+ +QCSF+EY++++++YR+YA+LF +VG+++ ENE+AIYEFIHN VE+LD YF  V  + I+  LD
Sbjct:    1 MIKFFLMVNKQGQTRLSKYY-EHVDINKRTLLETEVIKSCLSRSNEQCSFIEYKDFKLIYRQYAALFIVVGVNDTENEMAIYEFIHNFVEVLDEYFSRVSELDIMFNLD 108
The following BLAST results are available for this feature:
BLAST of TCONS_00054708 vs. Swiss-Prot (Human)
Analysis Date: 2017-10-03 (blastx Clytia hemisphaerica v1.0 mRNA vs SwissProt (Homo sapiens))
Total hits: 1
Match NameE-valueIdentityDescription
AP4S11.814e-2952.29AP-4 complex subunit sigma-1 OS=Homo sapiens GN=AP... [more]
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