Miyakogusa Predicted Gene

Lj4g3v2180370.2
Show Alignment:  

BLASTP 2.2.25 [Feb-01-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= Lj4g3v2180370.2 tr|A9RV94|A9RV94_PHYPA Predicted protein
OS=Physcomitrella patens subsp. patens
GN=PHYPADRAFT_161188,37.1,6e-18,RNA_pol_Rpc4,RNA polymerase III Rpc4;
seg,NULL; SUBFAMILY NOT NAMED,NULL; DNA-DIRECTED RNA
POLYMERAS,CUFF.50439.2
         (296 letters)

Database: Medicago_aa4.0v1 
           62,319 sequences; 21,947,249 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Medtr1g080300.1 | RNA polymerase III RPC4 | HC | chr1:35654599-3...   272   3e-73
Medtr4g036455.1 | RNA polymerase III RPC4 | HC | chr4:13119924-1...   152   5e-37

>Medtr1g080300.1 | RNA polymerase III RPC4 | HC |
           chr1:35654599-35658519 | 20130731
          Length = 288

 Score =  272 bits (695), Expect = 3e-73,   Method: Compositional matrix adjust.
 Identities = 158/302 (52%), Positives = 196/302 (64%), Gaps = 22/302 (7%)

Query: 1   MDLGSSKDAPGGGGRRKVKFAPRAPPRRXXXXXXXXXXXXDTDANVAK---DLLRRLNEG 57
           MDL +    P    RRK+KF P+APPRR            + + +V+K   DLL+R NE 
Sbjct: 1   MDLNNDSKPPQ---RRKLKFQPKAPPRRVPKVEVKSEVIEEDNKDVSKVTMDLLQRHNEN 57

Query: 58  KL--RHKVEKKVSGSQIAFGDGGVASSIKSYGFPRGGSSASDGQNSEFNGKPQKEYKEPW 115
            +  R K EKKV  SQIAFG GG ++ +KSYG  +GGS +   +NS F G  +KEYKEPW
Sbjct: 58  AMNRRMKHEKKVLPSQIAFGAGGQSTYLKSYG-TKGGSKS---ENSAFYGVTEKEYKEPW 113

Query: 116 DYYSEYPTTLPLRRPYSGNPEYLDEEEFGEAAESRTYDEDSANSAVELGLLEENPETSMF 175
           +  +EYP   PLR+PYSGNPE LDE+EFGE AESRTYDE +A+SAVEL LLEENPE S F
Sbjct: 114 ELDTEYPIVHPLRKPYSGNPEKLDEKEFGETAESRTYDESAASSAVELDLLEENPEASAF 173

Query: 176 LMRL-PTLPIPKQSATAGGKGDNGNNTKRPEGSKDXXXXXXXXXXXXXAGYMGKMVVYKS 234
            M+L P +P+ K       K D     KRP G +               G +GKM+VYKS
Sbjct: 174 FMKLPPVIPMIK-------KPDADGKDKRPGGYR--GAAKLCRLNDLPPGLIGKMLVYKS 224

Query: 235 GAVKLKLGDTLYDVSSGMNCSFAQDLVTINTAKKDCCAVGEISKCATITPNVDSLLDSLA 294
           G VKLKLG+TLYDVSSGMNC FAQ+   INTA+K C A+GEI+K AT+TP++D+ LD L+
Sbjct: 225 GKVKLKLGNTLYDVSSGMNCIFAQEFAAINTAQKFCSALGEINKFATVTPDIDAALDCLS 284

Query: 295 GL 296
            L
Sbjct: 285 DL 286


>Medtr4g036455.1 | RNA polymerase III RPC4 | HC |
           chr4:13119924-13123885 | 20130731
          Length = 310

 Score =  152 bits (383), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 85/184 (46%), Positives = 113/184 (61%), Gaps = 9/184 (4%)

Query: 109 KEYKEPWDYYSEYPTTLPLRRPYSGNPEYLDEEEFGEAAESRTYDEDSANSAVELGLLEE 168
           ++Y EPW   + YPTTLPLR+P SG+P  LDE EFGEAA    YD D+ NSA ELGL ++
Sbjct: 126 EDYVEPWGPDTNYPTTLPLRKPNSGDPAILDEIEFGEAATDVKYDGDNLNSAEELGLSDK 185

Query: 169 NPETSMFLMRLPT-LPIPKQSATAGGKGDNGNNTKRPEGSKDXXXXXXXXXXXXXAGYMG 227
           + +  +   +LPT LP  KQ   + GK   G +    +  K              +GYMG
Sbjct: 186 SEQPQLIFFKLPTVLPCVKQPVNSKGKEKIGTSKVSAKAKK------ASNLLELPSGYMG 239

Query: 228 KMVVYKSGAVKLKLGDTLYDVSSGMNCSFAQDLVTINTAKKDCCAVGEIS--KCATITPN 285
           KM VYKSGAVKLK+G+TLYDVS G      QD+V INTAKK+   VG+++    A +TP+
Sbjct: 240 KMQVYKSGAVKLKIGETLYDVSPGTKTILDQDVVAINTAKKNYSVVGKVTVDAKAVVTPD 299

Query: 286 VDSL 289
           +D++
Sbjct: 300 IDAI 303