DRSC/TRiP Functional Genomics Resources

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Protein Alignment nAChRalpha1 and Chrna4

DIOPT Version :9

Sequence 1:NP_001262916.1 Gene:nAChRalpha1 / 42918 FlyBaseID:FBgn0000036 Length:597 Species:Drosophila melanogaster
Sequence 2:XP_038960311.1 Gene:Chrna4 / 25590 RGDID:2346 Length:802 Species:Rattus norvegicus


Alignment Length:620 Identity:259/620 - (41%)
Similarity:346/620 - (55%) Gaps:106/620 - (17%)


- Green bases have known domain annotations that are detailed below.


  Fly     1 MGSVLFAAVFIALHFATGGLANPDAKRLYDDLLSNYNRLIRPVGNNSDRLTVKMGLRLSQLIDVN 65
            :|:.|..|   :.|..|...|.   :||...|.|.||:..|||.|.||.:.|:.||.::|||||:
  Rat   181 LGTGLLPA---SSHIETRAHAE---ERLLKRLFSGYNKWSRPVANISDVVLVRFGLSIAQLIDVD 239

  Fly    66 LKNQIMTTNVWVEQEWNDYKLKWNPDDYGGVDTLHVPSEHIWLPDIVLYNNADGNYEVTIMTKAI 130
            .|||:|||||||:|||:||||:|:|.||..|.::.:|||.||.|||||||||||::.||.:|||.
  Rat   240 EKNQMMTTNVWVKQEWHDYKLRWDPGDYENVTSIRIPSELIWRPDIVLYNNADGDFAVTHLTKAH 304

  Fly   131 LHHTGKVVWKPPAIYKSFCEIDVEYFPFDEQTCFMKFGSWTYDGYMVDLRHLKQTADSDNIEVGI 195
            |.:.|:|.|.|||||||.|.|||.:||||:|.|.|||||||||...:||..:...         :
  Rat   305 LFYDGRVQWTPPAIYKSSCSIDVTFFPFDQQNCTMKFGSWTYDKAKIDLVSMHSR---------V 360

  Fly   196 DLQDYYISVEWDIMRVPAVRNEKFYSCCEEPYLDIVFNLTLRRKTLFYTVNLIIPCVGISFLSVL 260
            |..|::.|.||.|:......|.:.|.||.|.|.||.:...:||..||||:||||||:.||.|:||
  Rat   361 DQLDFWESGEWVIVDAVGTYNTRKYECCAEIYPDITYAFIIRRLPLFYTINLIIPCLLISCLTVL 425

  Fly   261 VFYLPSDSGEKISLCISILLSLTVFFLLLAEIIPPTSLTVPLLGKYLLFTMMLVTLSVVVTIAVL 325
            ||||||:.|||::||||:|||||||.||:.||||.|||.:||:|:||||||:.||||:|:|:.||
  Rat   426 VFYLPSECGEKVTLCISVLLSLTVFLLLITEIIPSTSLVIPLIGEYLLFTMIFVTLSIVITVFVL 490

  Fly   326 NVNFRSPVTHRMAPWVQRLFIQILPKLLCIERPK--KEE------------------PEEDQPPE 370
            ||:.|||.||.|..||:|:|:.|:|:||.::||.  |:.                  ||....|.
  Rat   491 NVHHRSPRTHTMPAWVRRVFLDIVPRLLFMKRPSVVKDNCRRLIESMHKMANAPRFWPEPVGEPG 555

  Fly   371 VLTDVYH------------------------LPP---------DVDKFVNYDS-------KRFSG 395
            :|:|:.:                        .||         :|:|.....|       |..||
  Rat   556 ILSDICNQGLSPAPTFCNPTDTAVETQPTCRSPPLEVPDLKTSEVEKASPCPSPGSCPPPKSSSG 620

  Fly   396 --------DYGIPALPASHRFDLAAAGGISA------HCFAE---PPLPSSLPLPGADDDLFSPS 443
                    ...:..:|:|..   ||..||..      :|.::   ..|..|.|..........||
  Rat   621 APMLIKARSLSVQHVPSSQE---AAEDGIRCRSRSIQYCVSQDGAASLADSKPTSSPTSLKARPS 682

  Fly   444 GL--NGDISPGCC---------PAAAAAAAADLSPTFEKPYAREMEKTIEGSRFIAQHVKNKDKF 497
            .|  :...||..|         |.....|....:|....|.:..:.:.:||.::||.|:|.:|..
  Rat   683 QLPVSDQASPCKCTCKEPSPVSPVTVLKAGGTKAPPQHLPLSPALTRAVEGVQYIADHLKAEDTD 747

  Fly   498 ESVEEDWKYVAMVLDRMFLWIFAIACVVGTALIIL 532
            .||:|||||||||:||:|||:|.|.|::||..:.|
  Rat   748 FSVKEDWKYVAMVIDRIFLWMFIIVCLLGTVGLFL 782

Known Domains:


Indicated by green bases in alignment.

GeneSequenceDomainRegion External IDIdentity
nAChRalpha1NP_001262916.1 Neur_chan_LBD 25..240 CDD:280998 111/214 (52%)
LIC 27..530 CDD:273305 252/590 (43%)
Neur_chan_memb 247..530 CDD:280999 136/370 (37%)
Chrna4XP_038960311.1 LGIC_ECD 199..405 CDD:355788 111/217 (51%)
Cys-loop 323..337 CDD:349787 9/13 (69%)
Neur_chan_memb 412..781 CDD:397193 136/371 (37%)


Information from Original Tools:


Tool Simple Score Weighted Score Original Tool Information
BLAST Result Score Score Type Cluster ID
Compara 00.000 Not matched by this tool.
Domainoid 1 1.000 253 1.000 Domainoid score I1995
eggNOG 00.000 Not matched by this tool.
Hieranoid 1 1.000 - -
Homologene 00.000 Not matched by this tool.
Inparanoid 1 1.050 477 1.000 Inparanoid score I1422
OMA 00.000 Not matched by this tool.
OrthoDB 1 1.010 - - D188416at33208
OrthoFinder 00.000 Not matched by this tool.
OrthoInspector 1 1.000 - - mtm12327
orthoMCL 1 0.900 - - OOG6_101158
Panther 00.000 Not matched by this tool.
Phylome 1 0.910 - -
SonicParanoid 1 1.000 - - X294
SwiftOrtho 1 1.000 - -
TreeFam 00.000 Not matched by this tool.
98.870

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