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Overview
Sequence
The following sequences are available for this feature:
transcript sequence >TCONS_00052150 ID=TCONS_00052150|Name=TCONS_00052150|organism=Clytia hemisphaerica|type=transcript|length=5715bpRun BLAST on NCBI transcript from alignment at scaffold_211:69247..90254+ Legend: exon Hold the cursor over a type above to highlight its positions in the sequence below.>TCONS_00052150 ID=TCONS_00052150|Name=TCONS_00052150|organism=Clytia hemisphaerica|type=transcript|length=21008bp|location=Sequence derived from alignment at scaffold_211:69247..90254+ (Clytia hemisphaerica) Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Position
The following features are aligned
Expression
Hover the mouse over a column in the graph to view expression values in transcripts per million (tpm).
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
Blast
BLAST of TCONS_00052150 vs. Swiss-Prot (Human)
Match: SCN2A (Sodium channel protein type 2 subunit alpha OS=Homo sapiens GN=SCN2A PE=1 SV=3) HSP 1 Score: 623.239 bits (1606), Expect = 0.000e+0 Identity = 426/1109 (38.41%), Postives = 633/1109 (57.08%), Query Frame = 1
Query: 1330 KSWKTMGQLLSTIAGSMGALGNVTVILGLIIYIFSVMGMQIFGSLYDKTKYKPCDPDGEEFPRYNFENFGNSFMMIFRILCGKWIEPQWDLLDLTNIASIFFIFL-VFVIGRWVVXXXXXXXXXXXXXXXXETSDEEDEEPKMTRIQXXXXXXXXXXXXXXXANFNDMDENDEKKDLGDGENGNLDTKNLADGNIPDMHVEIYGKDGMLMVDSNGNEPKMTEVNSDIDNNLKPILNNHDSDISKLQNGT-----TISNGD-----VSRRRLSGSVDIEIPVSVAPTEGFSNGGLDNGMGKKENSLSSVKIE--IQREKTYIDDXXXXXXXXXXXXNTSYLESPLRRFWHNSRHNMKMLIEHKYFEAVILFLIAFSSLTLVFEDVYLNEKEGLKDFLFYCNYFFAIIFTLEFLVKLFALGFVTYFTNFWNLLDVFIVAISLSSLFGDSGG-----NLKALRSLRGLRPLRAISRFEGMKVVVNALVYSIPSIGNVLLVCVAFWLIFSIMGYNLFGGKFSRCLDENFKQL-NISWVNNKTQCFDRIREGYNYTWKNRNINFDDAASGFLALFQTATLEGWFEAMADAYDARNIDEQPGYRVSYFNQMYFVVFILLGAFFILNLFIGVIIDNFNRLKQQYEDGADGVSFFLTPGQRNWINTLKAASLKKPSRRLTRPKSKWRGTLFDFIQTKYFEFFIMSVILLNMLSMMIQHYNQPREVDLALDYLNYVFTGIFTIEAILRLTAMRLEYFKYGMNVFDFIIVVFSIADIILTTVETDIPIQPXXXXXXXXXXXXXXXXXXESAKGIRQLIFTIMKSAPALSNVGTXXXXXXXXYAIIGMTMFGHVGYSTYITPTVNFKTFGSSFCLLFRVATAAGWNGVLEG-LCIEPPHCNPNKFIPXXXXXXXXXXXXNKIAAVIYLVSFMFIIVQFIVNMYIAVILENFNDAQNQESVGITEDAIEDFYETWKKYDPKAKQFMEYKDVSDFLDQVPRPFRKVKPNNEFIASLNCPVREGRKVHCLDLLQALIKQIIGEDKCKLDEADAMXXXXXXXXXXXXXXQFPVREKKGIIETTTERVRVEDAACRRIQKLARWYLIQSNVEMI-----KDSGLE 4581
KSW T+ L+ I S+GALGN+T++L +I++IF+V+GMQ+FG Y + K + E PR++ +F +SF+++FR+LCG+WIE WD +++ +F+ V VIG VVLNLFLALLLSSF+ N + ++D E +I K+ F ++K L D D N D I + GKD + D NG S I ++++ + + +S + N + I+ G+ ++ S D+E S G + E V+ E ++ E + +DC+ F +E + W N R ++EH +FE I+F+I SS L FED+Y+ +++ +K L Y + F IF LE L+K A GF YFTN W LD IV +SL SL ++ G +K+LR+LR LRPLRA+SRFEGM+VVVNAL+ +IPSI NVLLVC+ FWLIFSIMG NLF GKF C++ ++ ++S VNN ++C I WKN +NFD+ G+L+L Q AT +GW + M A D+RN++ QP Y + + +YFV+FI+ G+FF LNLFIGVIIDNFN+ K+++ G F+T Q+ + N +K KKP + + RP +K++G +FDF+ + F+ IM +I LNM++MM++ +Q +E+ L ++N VF +FT E +L+L ++R YF G N+FDF++V+ SI + L + + P LFRVIR+ RIGR+LR + AKGIR L+F +M S PAL N+G LLFL++FIYAI GM+ F +V I NF+TFG+S LF++ T+AGW+G+L L PP C+P+K P G KGDCGN + + VS++ I +VNMYIAVILENF+ A + + ++ED E FYE W+K+DP A QF+E+ +SDF D + P KPN + +++ P+ G ++HCLD+L A K+++GE E DA+ ++ + P + I TT +R + E+ + IQ+ R YL++ V+ + KD G E
Sbjct: 862 KSWPTLNMLIKIIGNSVGALGNLTLVLAIIVFIFAVVGMQLFGKSYKECVCKISN--DCELPRWHMHDFFHSFLIVFRVLCGEWIETMWDCMEVAGQTMCLTVFMMVMVIGNLVVLNLFLALLLSSFSSDNLAATDDDNEMNNLQIAVGRMQKGIDFVKRKIREFIQKAFVRKQKAL-DEIKPLEDLNNKKDSCISNHTTIEIGKDLNYLKDGNGT-------TSGIGSSVEKYVVDESDYMSFINNPSLTVTVPIAVGESDFENLNTEEFSSESDMEESKEKLNATSSSEGSTVDIGAPAEGEQPEVEPEESLEPEACFTEDCVRKFKCCQIS-----IEEGKGKLWWNLRKTCYKIVEHNWFETFIVFMILLSSGALAFEDIYIEQRKTIKTMLEYADKVFTYIFILEMLLKWVAYGFQVYFTNAWCWLDFLIVDVSLVSLTANALGYSELGAIKSLRTLRALRPLRALSRFEGMRVVVNALLGAIPSIMNVLLVCLIFWLIFSIMGVNLFAGKFYHCINYTTGEMFDVSVVNNYSECKALIESNQTARWKNVKVNFDNVGLGYLSLLQVATFKGWMDIMYAAVDSRNVELQPKYEDNLYMYLYFVIFIIFGSFFTLNLFIGVIIDNFNQQKKKF----GGQDIFMTEEQKKYYNAMKKLGSKKPQKPIPRPANKFQGMVFDFVTKQVFDISIMILICLNMVTMMVETDDQSQEMTNILYWINLVFIVLFTGECVLKLISLRYYYFTIGWNIFDFVVVILSIVGMFLAELIEKYFVSPTLFRVIRLARIGRILRLIKGAKGIRTLLFALMMSLPALFNIGLLLFLVMFIYAIFGMSNFAYVKREVGIDDMFNFETFGNSMICLFQITTSAGWDGLLAPILNSGPPDCDPDKDHP---GSSVKGDCGNPSVGIFFFVSYIIISFLVVVNMYIAVILENFSVATEESAEPLSEDDFEMFYEVWEKFDPDATQFIEFAKLSDFADALDPPLLIAKPNKVQLIAMDLPMVSGDRIHCLDILFAFTKRVLGES----GEMDALRIQMEERFMASN----PSKVSYEPITTTLKR-KQEEVSAIIIQRAYRRYLLKQKVKKVSSIYKKDKGKE 1939 HSP 2 Score: 135.576 bits (340), Expect = 1.555e-31 Identity = 80/197 (40.61%), Postives = 123/197 (62.44%), Query Frame = 3
Query: 3 LKAMVNTLLKSMKMMTDVIILTLFFISIFALIGLQLFPGQLRSRCVK---------------------GRGN-----LSIFE-DDYYKKKENWAFKQNTEEEIICGNASTAWNCPDNYTCIPGIGENPGRGYVSYDSFPQAFLTSLQVCTLDYWEIVFNSVISAMGEWYMIYFLLAVFLGPFYXXXXXXXXXXXXYE 512
LK +V L++S+K ++DV+ILT+F +S+FALIGLQLF G LR++C++ G G +SIF D+Y + K ++ F + + ++CGN+S A CP+ Y C+ G NP GY S+D+F AFL+ ++ T D+WE ++ + A G+ YMI+F+L +FLG FYL+NL+LAVV+ +YE
Sbjct: 234 LKTIVGALIQSVKKLSDVMILTVFCLSVFALIGLQLFMGNLRNKCLQWPPDNSSFEINITSFFNNSLDGNGTTFNRTVSIFNWDEYIEDKSHFYFLEGQNDALLCGNSSDAGQCPEGYICVKA-GRNPNYGYTSFDTFSWAFLSLFRLMTQDFWENLYQLTLRAAGKTYMIFFVLVIFLGSFYLINLILAVVAMAYE 429 HSP 3 Score: 125.946 bits (315), Expect = 1.550e-28 Identity = 70/164 (42.68%), Postives = 103/164 (62.80%), Query Frame = 3
Query: 831 CIAINTAFMASEHYDMDTTYKYFLEICNYVFTTMFAIEMVMKILGYTLKGYLKNKWNMFDGXXXXXXXXXXXXXXXGLVDGNVLSFLKVFRLMRVMKLAKSWKTMGQLLSTIAGSMGALGNVTVILGLIIYIFSVMGMQIFGSLYDKTKYKPCDPDGEEFPRYN 1322
CI +NT FMA EHY M + L + N VFT +F EM +KI+ Y + WN+FDG +V +S++++ GL + LS L+ FRL+RV KLAKSW T+ L+ I S+GALGN+T++L +I++IF+V+GMQ+FG Y + K + E PR++
Sbjct: 768 CIVLNTLFMAMEHYPMTEQFSSVLSVGNLVFTGIFTAEMFLKIIAMDPYYYFQEGWNIFDGFIVSLSLMEL-----GLANVEGLSVLRSFRLLRVFKLAKSWPTLNMLIKIIGNSVGALGNLTLVLAIIVFIFAVVGMQLFGKSYKECVCKIS--NDCELPRWH 924 The following BLAST results are available for this feature:
BLAST of TCONS_00052150 vs. Swiss-Prot (Human)
Analysis Date: 2017-10-03 (blastx Clytia hemisphaerica v1.0 mRNA vs SwissProt (Homo sapiens)) Total hits: 1
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