Subject: more ribosomal prot cleans
I have just done some more work on the genes said to have proteins
that are 'ribosomal protein \*-like'
...
This is a mitochondrial ribosomal protein
rename
\*a CG4866
>
\*a mRpS4
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>CG4866-PA feature: protein
MVRKLKFHEQKLLKKVDFITWKVDNGGKENKILRRFHIQKREDYTKYNKL
SREIRELAERIAKLDASEPFKTEATTMLLNKLHAMGVSNDQLTLETAAKI
SASHFCRRRLPVIMVKLRMSEHLKAATDLIEHGHVRVGPEMIKDPAFLVS
RNLEDFVTWVDGSKIKEHVLRYNDMRDDFQM
>RpS4-PA feature: protein
MARGPKKHLKRLAAPKAWMLDKLGGVFAPRPSTGPHKLRESLPLLIFLRN
RLKYALNGAEVTKIVMQRLVKVDGKVRTDPTYPAGYMDVITLEKTGEFFR
LVYDVKGRFVIHRISAEEAKYKLCKVKKTQLGAKGVPFLVTHDGRTIRYP
DPLIHANDSVQVDIASGKITDYIKFDSGNLCMITGGRNLGRVGTVVNRER
HPGSFDIVHIKDSQGHVFATRLTNVFIIGKGNKPYISLPKGKGVKLSIAE
ERDKRLAAKTH
>RpS4-PB feature: protein
MARGPKKHLKRLAAPKAWMLDKLGGVFAPRPSTGPHKLRESLPLLIFLRN
RLKYALNGAEVTKIVMQRLVKVDGKVRTDPTYPAGYMDVITLEKTGEFFR
LVYDVKGRFVIHRISAEEAKYKLCKVKKTQLGAKGVPFLVTHDGRTIRYP
DPLIHANDSVQVDIASGKITDYIKFDSGNLCMITGGRNLGRVGTVVNRER
HPGSFDIVHIKDSQGHVFATRLTNVFIIGKGNKPYISLPKGKGVKLSIAE
ERDKRLAAKTH
CG4866-PA MVRKLKFHEQKLLKKVDFITWKVDN-GG--KENK-----ILRR---FHIQKREDYTKYNK
RpS4-PA MARGPKKHLKRLAAPK---AWMLDKLGGVFAPRPSTGPHKLRESLPLLIFLR-NRLKYAL
RpS4-PB MARGPKKHLKRLAAPK---AWMLDKLGGVFAPRPSTGPHKLRESLPLLIFLR-NRLKYAL
\*.\* \* \* ::\* :\* :\*: \*\* . \*\*. : \*
\* : \*\*
CG4866-PA LSREIRELA-ERIAKLD---ASEP-FKT--------EAT---TMLLN--K----LHAMGV
RpS4-PA NGAEVTKIVMQRLVKVDGKVRTDPTYPAGYMDVITLEKTGEFFRLVYDVKGRFVIHRISA
RpS4-PB NGAEVTKIVMQRLVKVDGKVRTDPTYPAGYMDVITLEKTGEFFRLVYDVKGRFVIHRISA
. \*: ::. :\*:.\*:\* ::\* : : \* \* \*: \*
 :\* :..
CG4866-PA SNDQLTLETAAK--ISAS--HFCR----R--RLP--VIMV--KLRMSEHLKAATDLIEH-
RpS4-PA EEAKYKLCKVKKTQLGAKGVPFLVTHDGRTIRYPDPLIHANDSVQVDIASGKITDYIKFD
RpS4-PB EEAKYKLCKVKKTQLGAKGVPFLVTHDGRTIRYPDPLIHANDSVQVDIASGKITDYIKFD
.: : .\* .. \* :.\*. \* \* \* \* :\* . .:::.
\*\* \*:.
CG4866-PA \-G---HV-------RVG--------P---E--MIKD---P--------AFLVSRNLEDFV
RpS4-PA SGNLCMITGGRNLGRVGTVVNRERHPGSFDIVHIKDSQGHVFATRLTNVFIIGKGNKPYI
RpS4-PB SGNLCMITGGRNLGRVGTVVNRERHPGSFDIVHIKDSQGHVFATRLTNVFIIGKGNKPYI
\* : \*\*\* \* : \*\*\*
.\*::.:. : ::
CG4866-PA TWVDGSKIKEHVLRYNDMRDDFQM-
RpS4-PA SLPKGKGVKLSIAEERDKRLAAKTH
RpS4-PB SLPKGKGVKLSIAEERDKRLAAKTH
 : .\*. :\* : . .\* \* :
>gi|8922794|ref|NP_060755.1| chromosome 15 open reading frame 12; mitochondrial
ribosomal
protein S4 <up>Homo sapiens</up>
gi|7023341|dbj|BAA91929.1| unnamed protein product <up>Homo sapiens</up>
gi|12053321|emb|CAB66847.1| hypothetical protein <up>Homo sapiens</up>
gi|13623715|gb|AAH06487.1| Chromosome 15 open reading frame 12 <up>Homo sapiens</up>
gi|15079901|gb|AAH11745.1| C15orf12 protein <up>Homo sapiens</up>
gi|15808676|gb|AAL06639.1| BRMS2 <up>Homo sapiens</up>
Length = 184
Score = 209 bits (531), Expect = 3e-53
Identities = 104/182 (57%), Positives = 143/182 (78%), Gaps = 1/182 (0%)
Query: 1 MVRKLKFHEQKLLKKVDFITWKV-DNGGKENKILRRFHIQKREDYTKYNKLSREIRELAE 59
MVRKLKFHEQKLLK+VDF+ W+V D+ E \++LRR+ \+Q+REDYT+YN+LSR \+RELA
Sbjct: 1 MVRKLKFHEQKLLKQVDFLNWEVTDHNLHELRVLRRYRLQRREDYTRYNQLSRAVRELAR 60
Query: 60 RIAKLDASEPFKTEATTMLLNKLHAMGVSNDQLTLETAAKISASHFCRRRLPVIMVKLRM 119
R+ L \+ F+ A+ LL+KL+A+G+ \+ \+LE \++AS FCRRRLP \+++KLRM
Sbjct: 61 RLRDLPERDQFRVRASAALLDKLYALGLVPTRGSLELCDFVTASSFCRRRLPTVLLKLRM 120
Query: 120 SEHLKAATDLIEHGHVRVGPEMIKDPAFLVSRNLEDFVTWVDGSKIKEHVLRYNDMRDDF 179
\++HL+AA \+E GHVRVGP+++ DPAFLV+R++EDFVTWVD SKIK HVL YN+ RDDF
Sbjct: 121 AQHLQAAVAFVEQGHVRVGPDVVTDPAFLVTRSMEDFVTWVDSSKIKRHVLEYNEERDDF 180
Query: 180 QM 181
\+
Sbjct: 181 DL 182
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