CDS:  The table below lists the coordinates of the T5J8.B exons and which exon prediction algorithms selected the 5' and 3' termini (GS = GenScan, Gr = GRAIL, M = MZEF, NPG = NetPlantGene - selects splice sites only, not exons). Splice sites delineated by EST T44566 are designated by EST.GenScan predicts a splice donor for the first exon at position 44550; NetPlantGene predicts a splice donor for this exon at position 44649.

Complete CDS of T5J8.B

ATGTTTGCTCAGTTAGCACCATCGCCGTCTCCTTCTCCGGCGAACGTTAGCCACTTCGTT
CACCGTCGCACCTTCCGTCAATGTACATACGCCGTCTCCGCTTCTCTTCCCACTGCAAAT
TCCTCTCGTCCACCACCAATTCAGGCAAACATTATTGTTGGAGGAAAGGATTTGAATTTG
GATGTTACACGGAAAGATGATTCAATTGGGTTCAAATTAGAGGCAAATGAAGATGAAATT
GATTGGATGAATCTAGAATCTGATATTCGTCTATGGACTAGAGCATTACGTCCTGTTCAG
TGGTATCCAGGGCACATAATGAAAACTGAAAAGGAACTTAGGGAACAGCTTAAGTTGATG
GATGTTGTGATTGAAGTCCGTGATGCTAGGATTCCTTTATCGACCACTCATCCAAAGATG
GATGCGTGGCTTGGGAATAGGAAACGGATATTGGTATTAAATAGAGAAGATATGATCTCG
AACGATGATCGAAATGATTGGGCGAGATACTTTGCAAAGCAAGGAATAAAGGTCATTTTC
ACTAATGGCAAACTTGGGATGGGAGCTATGAAGCTAGGTCGGTTAGCCAAAAGTTTAGCA
GGTGACGTAAATGGGAAACGGCGAGAAAAAGGACTTCTCCCTAGATCAGTTAGAGCTGGA
ATAATTGGATACCCTAATGTTGGGAAATCATCTCTGATCAATCGTCTATTGAAACGAAAA
ATTTGCGCAGCAGCTCCAAGACCAGGTGTAACTAGAGAAATGAAATGGGTCAAGCTTGGG
AAAGATCTTGATCTCTTAGATTCACCTGGAATGCTTCCTATGCGTATCGATGATCAAGCA
GCTGCTATAAAGCTGGCAATTTGTGATGACATTGGAGAGAAAGCTTATGACTTCACTGAT
GTTGCTGGAATCCTTGTGCAGATGTTAGCACGGATTCCAGAAGTAGGCGCAAAGGCTCTT
TACAACCGATACAAGATCCAGCTAGAAGGCAACTGCGGGAAAAAATTTGTGAAGACGCTT
GGTCTTAATTTGTTTGGTGGAGATAGTCATCAAGCTGCATTTAGAATACTAACGGATTTT
CGCAAAGGCAAATTCGGGTATGTCTCGTTGGAGAGACCTCCACTGTGA

Protein translation

MFAQLAPSPSPSPANVSHFVHRRTFRQCTYAVSASLPTANSSRPPPIQANIIVGGKDLNL
DVTRKDDSIGFKLEANEDEIDWMNLESDIRLWTRALRPVQWYPGHIMKTEKELREQLKLM
DVVIEVRDARIPLSTTHPKMDAWLGNRKRILVLNREDMISNDDRNDWARYFAKQGIKVIF
TNGKLGMGAMKLGRLAKSLAGDVNGKRREKGLLPRSVRAGIIGYPNVGKSSLINRLLKRK
ICAAAPRPGVTREMKWVKLGKDLDLLDSPGMLPMRIDDQAAAIKLAICDDIGEKAYDFTD
VAGILVQMLARIPEVGAKALYNRYKIQLEGNCGKKFVKTLGLNLFGGDSHQAAFRILTDF
RKGKFGYVSLERPPL*

Alternate translations

Using the initial exon as predicted by GenScan gives a translation of:

MFAQLAPSPSPSPANIVGGKDLNLDVTRKDDSIGFKLEANEDEIDWMNLESDIRLWTRAL
RPVQWYPGHIMKTEKELREQLKLMDVVIEVRDARIPLSTTHPKMDAWLGNRKRILVLNRE
DMISNDDRNDWARYFAKQGIKVIFTNGKLGMGAMKLGRLAKSLAGDVNGKRREKGLLPRS
VRAGIIGYPNVGKSSLINRLLKRKICAAAPRPGVTREMKWVKLGKDLDLLDSPGMLPMRI
DDQAAAIKLAICDDIGEKAYDFTDVAGILVQMLARIPEVGAKALYNRYKIQLEGNCGKKF
VKTLGLNLFGGDSHQAAFRILTDFRKGKFGYVSLERPPL*

Using the initial exon as predicted by NetPlantGene gives a translation of:

MFAQLAPSPSPSPANVSHFVHRRTFRQCTYAVSASLPTANSSRPPPIQIVGGKDLNLDVT
RKDDSIGFKLEANEDEIDWMNLESDIRLWTRALRPVQWYPGHIMKTEKELREQLKLMDVV
IEVRDARIPLSTTHPKMDAWLGNRKRILVLNREDMISNDDRNDWARYFAKQGIKVIFTNG
KLGMGAMKLGRLAKSLAGDVNGKRREKGLLPRSVRAGIIGYPNVGKSSLINRLLKRKICA
AAPRPGVTREMKWVKLGKDLDLLDSPGMLPMRIDDQAAAIKLAICDDIGEKAYDFTDVAG
ILVQMLARIPEVGAKALYNRYKIQLEGNCGKKFVKTLGLNLFGGDSHQAAFRILTDFRKG
KFGYVSLERPPL*

Multiple sequence analysis

Presented is an alignment of conserved hypothetical proteins from several different species. Proteins from Synechocystis sp. (Synecho.hypo), B. subtilis (Bsub.hypo), B. burgdorferi (BB0643), Schizosaccharomyces pombe (YspAC6F6.03c), and Arabidopsis thaliana are presented. The two A. thaliana proteins are T5J8.B and T32G6.19.

              1                                                         60
YspAC6F6.03c  MGTYKKEKSRIGRYNAAGELVRAAEFQSSEVPKARIEGANEKKPGNLRVKGENFYRNAKD

              61                                                       120
YspAC6F6.03c  VARVNMYRGGKAKQPDRRWFNNTRVIAQPTLTQFREAMGQKLNDPYQVLLRRNKLPMSLL
      T5J8.B  ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~MFAQLAPSPSPSP

              121                                                      180
YspAC6F6.03c  QENTEIPKVRVLESEPFENTFG.PKSQRKRPKISFDSVAELAKESDEKQNAYEEKIEERI
      T5J8.B  ANVSHFVHRRTFRQCTYAVSASLPTANSSRPPPIQANIIVGGKDLNLDVTRKDDSIGFKL

              181                                                      240
YspAC6F6.03c  LANPDESD......DVML...AARDAIFSKGQSKRIWNELYKVIDSSDVLIQVLDARDPV
      T5J8.B  EANEDEIDWMNLESDIRLWTRALRPVQWYPGHIMKTEKELREQLKLMDVVIEVRDARIPL
Synecho.hypo  ~~~~~~~~~~~~~~~~~~~~~~MALIQWYPGHIAKAERQLREQLNKVDVVLEVIDARIPL
   Bsub.hypo  ~~~~~~~~~~~~~~~~~~~~~~~MTIQWFPGHMAKARREVTEKLKLIDIVYELVDARIPM
      BB0643  ~~~~~~~~~~~~~~~~~~~~~MANKINWFPGHMKRALDLIKNNLQKANIVLEILDARAPF
  AtT32G6.19  MVMMLKKTVKKGLIGGMSFAKDAGKINWFPGHMAAATRAIRNRLKLSDLVIEVRDARIPL 

              241                                                      300
YspAC6F6.03c  GTRCGTVERYLRNEASHKHMILVLNKVDLVPTSVAA.....AWVKILAKEYPTIAFHASI
      T5J8.B  STTHPKMDAWLGN....RKRILVLNREDMISNDDRN.....DWARYFAKQGIKVIFTNGK
Synecho.hypo  ASQHPDVPLWVGE....KPKLIILNRVDMITPELQE.....QWLTWFRQQNQTVYYANAK 
   Bsub.hypo  SSRNPMIEDILKN....KPRIMLLNKADKADAAVTQ.....QWKEHFENQGIRSLSINSV 
      BB0643  SSKNPLTEKITKN....QAKIILLHKSDVAQINEII.....KWKKYFENLG.NTVIISNI 
  AtT32G6.19  SSANEDLQSQMSA....KRRIIALNKKDLANPNVLNVIRFFKWTRHFESSKQDCIAINAH 

              301                                                      360
YspAC6F6.03c  NNSFGKGSLIQILRQFASLHSDKKQ........ISVGLIGFPNAGKSSIINTL.......
      T5J8.B  LGMGAMK.LGRLAKSLAGDVNGKRREKGLLPRSVRAGIIGYPNVGKSSLINRL....... 
Synecho.hypo  QGTGVKA.ISKAAQQAGKAVNERRQRRGMQPRPVRAVVMGFPNVGKSALINRL....... 
   Bsub.hypo  NGQGL.NQIVPASKEILQEKFDRMRAKGVKPRAIRALIIGIPNVGKSTLINRL.......
      BB0643  YKKGMRKQIIDIIKKLAIVK....KIKNYKEK.IKVLIIGVPNVGKSSIINLL....... 
  AtT32G6.19  SRSSVMKLLDLVELKLKEVI........AREPTLLVMVVGVPNVGKSALINSIHQIAAAR 

              361                                                      420
YspAC6F6.03c  ....RKKKVCNVAPIPGETKVWQYVALMK..RIFLIDCPGIVPPSSNDSDAELLLKGV..
      T5J8.B  ....LKRKICAAAPRPGVTREMKWVKLGK..DLDLLDSPGMLPMRIDDQAAAIKLAICDD 
Synecho.hypo  ....LGRKVVESARRAGVTRQLRWIRISD..SLELLDSPGVIPLKLENQANALKLAICED 
   Bsub.hypo  ....AKKNIAKTGDRPGITTSQQWVKVGK..ELELLDTPGILWPKFEDELVGLRLAVTGA 
      BB0643  ....SGKKSAKVANKPGYTKNIQIVKINE..EINLFDMPGILWHNLVDQSIAKKLAILDM 
  AtT32G6.19  FPVQERLKRATVGPLPGVTQDIAGFKIAHRPSIYVLDSPGVLVPSIPDIETGLKLALSGS 

              421                                                      480
YspAC6F6.03c  ..VRVENVSNPEAYIPTVL.SRCKVKHLERTYEISGWNDSTEFLAKLAKKGGRLL....K
      T5J8.B  IGEKAYDFTDVAGILVQML.ARIPEVGAKALYNRYKIQLEGNCGKKFVKTLGLNL....F 
Synecho.hypo  IGEAAYENQAVAIAMVDLL.LDL.SLG.EALTQRYQVPPEAMNGDLYLIALADAR....H 
   Bsub.hypo  IKDSIINLQDVAVFGLRFL....EEHYPERLKERYGLDEIPEDIAELFDAIGEKRGCLMS 
      BB0643  IKNEIVDNTDLALYLLEIM....DQNNKNILLKKYEI..YHKNSLDILQNFAKARKLIGK 
  AtT32G6.19  VKDSVVGEERIAQYFLAILNIRGTPLHWKYLVEGINEGPHADCIDKPSYNLKDLRHQRTK 

              481                                                      540
YspAC6F6.03c  GG..EPDEASVAKMVLNDFMRGKIPWFIGPKGLSSSNDEINSSQKVATQQTEGSDQDGEE
      T5J8.B  GG..DSHQA..AFRILTDFRKGKFGYVSLERPPL*~~~~~~~~~~~~~~~~~~~~~~~~~ 
Synecho.hypo  NG..DRERA..AVQLLNDFRKGLLGPLPLELPPEV*~~~~~~~~~~~~~~~~~~~~~~~~ 
   Bsub.hypo  GGLINYDKT..TEVIIRDIRTEKFGRLSFEQPTM*~~~~~~~~~~~~~~~~~~~~~~~~~ 
      BB0643  KNELNLEKA..SKILIKEFREGKFGKIILDKNYNAF*~~~~~~~~~~~~~~~~~~~~~~~ 
  AtT32G6.19  QPDSSALHY..VGDMISEVQRSLYITLSEFDGDTEDENDLECLIEQQFEVLQKALKIPHK 

              541                                        586
YspAC6F6.03c  AEEEWHGISDDGKADESESTKPVAEGSASESTDESAVDDNKNRS*~
      T5J8.B  ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 
Synecho.hypo  ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 
   Bsub.hypo  ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 
      BB0643  ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 
  AtT32G6.19  ASEARLMVSKKFLTLFRTGRLGPFILDDVPETETDHPNSKRVVVL* 

written 16 Feb 98
Larry Parnell