----------------------------------------------------------------------- I looked the data. The region is weak but not hard to find the answer: It was the extra T causing the problem: --GAGATAGTAGCT(T)GCTG--. You can remove the extra T there. It did not change the protein sequence you have so you are right about the protein sequence. Just the extra sequence is not G but a T down stream! -----------------------------------------------------------------------
I removed this extra base T at position 22981 and did a translation. The problme is solved now.
| |
S M D E I V A A A K A A N I H S F I E G L P Q v a a v
TCCATGGATGAGATAGTAGCTGCTGCTAAAGCAGCCAACATCCACAGCTTCATCGAAGGGCTGCCTCAGGTAGCGGCTGTG
22970 22980 22990 23000 23010 23020 23030 23040
| Intron
I put the missed fragment in the alignmnet. Itis EXACTLY the same as the
other gene in the fugu cintig sequence!
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MDR1_FUGU_ SRSVSMDEIVAAAKAANIHSFIEGLPQRYDTQAGDKGTQLSGGQKQRVAIARAIIRNPKL
MSR3_FUGU_ SRSVSMDEIvaaakaanihsfieglpqRYDTQAGDKGTQLSGGQKQRVAIARAIIRNPKL
MDR1_HUMAN SRVVSQEEIVRAAKEANIHAFIESLPNKYSTKVGDKGTQLSGGQKQRIAIARALVRQPHI
MDR1_LEIEN G--ATDEEVEEAARLAHIHHEIIKWTDGYDTEVGYKGRALSGGQKQRIAIARGLLRRPRL
MDR1_MOUSE SRAVSHEEIVRAAKEANIHQFIDSLPDKYNTRVGDKGTQLSGGQKQRIAIARALVRQPHI
MDR1_RAT_ SRVVSHEEIVRAAREANIHQFIDSLPEKYNTRVGDKGTQLSGGQKQRIAIARALVRQPHI
MDR1_CRIGR SRVVSQDEIERAAKEANIHQFIESLPDKYNTRVGDKGTQLSGGQKQRIAIARALVRQPHI
MDR1_CAEEL PSSVTMAQVEEAARLANIHNFIAELPEGFETRVGDRGTQLSGGQKQRIAIARALVRNPKI
MDR3_HUMAN SRVVSQDEIVSAAKAANIHPFIETLPHKYETRVGDKGTQLSGGQKQRIAIARALIRQPQI
MDR3_MOUSE SRVVSYEEIVRAAKEANIHQFIDSLPDKYNTRVGDKGTQLSGGQKQRIAIARALVRQPHI
MDR3_CRIGR SRVVSQDEIVRAAKAANIHPFIETLPQKYKTRVGDKGTQLSGGQKQRLAIRRALIRQPRV
MDR3_CAEEL N--ITQDQVEKAATLANIHTFVMGLPDGYDTSVGASGGRLSGGQKQRVAIARAIVRDPKI
. .. **. **** ** ** . * * * ********.** * ..* *..
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