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Gene Nucleotide Sequences and Its Functions
1. 1
University of Veterinary and Animal Sciences Lahore
Assignment Topic:
Gene Nucleotide Sequences and Its Nucleotide Sequences
Submitted By:
Name: Mohsin Shad
Registration Number: 2013-BC-005
Semester: 5th
Date: 01-02-2016
Assignment: Proteomic
Submitted To:
Dr. Muhammad Tayyab
3. 3
5'3' Frame 1
T R I T V G N D C Stop D W I G I F K A S Stop K F Stop K T R K G Met L R D G L A A
H Stop L V G K V Met A Y Q D H D V Stop L D Stop E V E R P H W D Stop D T A Q T P T
G G S S K E F S A Met E E T L T E Q R R V N D E V F R Y V K F F Y Stop R R K N D G K
I I L T V F N E Stop A P A N Y V P A A A V I H G G Q A L S G F I G R K G C V G G L I S
L W Y K F N A Stop R C D A I E T V L L E L D R G K W N S Met C S G K Met R K
D Met E E H Q Stop R R R L A G S Stop L T L R H E S V G S K Q D Stop I P W Stop S T
P Stop T MetS T K C W V K P V L K L T H Stop V L R L S S T Y A S Met K L K G I D G T
P H K R W I Met L F N S K I H E K P Y Q V L T Y S A K L Stop K Y S G G Y Q G Y R W
C Met V V V S S C R E Met L G
5'3' Frame 2
R G Stop R L E T T A K T G Stop E F L R H L K N F K R P A R V C Stop E Met G L R H I
S Stop L V R Stop W L T K T Met Met C S W T E R L N G H I G T E I R P K L L R E A A V
R N F R Q W R K L Stop P S N A A Stop T Met K Y L G Met Stop S S F I K E E
K Met Met EK S F Stop R Y L Met N K P R L T Met C Q Q L R Stop Y Met G G K R Y P D
L L G V K G A Stop A V Stop Stop V Y G I S S T L N V V Met L Stop K L F Y Stop S W I E
A S G I P C V A V K C V K I W R N T S S E G G L L D L N Stop R Stop G T K A W G A N
R I R Y P G S P R R K R Stop V L S V G L N Q C Stop S Stop H I K Y S A Stop V V R T Q
V Stop N L K E L T G L R T S G G S C C L I R R Y T K N L T R S Stop H T L Q N Y R N I
V E V I R D T G G A W L S S A R V V R C W
5'3' Frame 3
E D N G W K R L L R L D R N F Stop G I L K I L K D P Q G Y A E R W A C G T L V S
W Stop G N G L P R P Stop C V A G L R G Stop T A T L G L R Y G P N S Y G R Q
Q Stop G I F G N G G N S D R A T P R E R Stop S I Stop V C K V L L L K K K K Stop W
K N H S D G I Stop Stop I S P G Stop L C A S S C G N T W G A S V I R I Y W A Stop R V
R R R F N K S Met V Stop V Q R L T L Stop C Y R N C F T R V G Stop R Q V E F H
V Stop R Stop N A Stop R Y G G T P V A K A A C W I L T D A E A R K R G E Q T G L D
T L V V H A V N D E Y Stop V L G Stop T S A E V N T L S T P P E Stop Y V R K Y E
T Stop R N Stop R D S A Q A V D H V V Stop F E D T R K T L P G L D I L C K T I E
I Stop W R L S G I Q V V H G C R Q L V S Stop D V G
Primer Designing:
Forward Primer = CTACGGGAGGCAGCAGTAAG
Reverse Primer= CGCTACTGGTGTTCCTCCAT
(2) Porcine circovirus isolate Hebei capsid protein gene,
complete cds
LOCUS AY735451 702 bp DNA linear VRL 28-SEP-2004
SOURCE Porcine circovirus
4. 4
ORGANISM Porcine circovirus
Viruses; ssDNA viruses; Circoviridae
AUTHORS Li,P., Li,K., Cui,Y. and Chen,P.
TITLE Porcine circovirus ORF2
Nucleotide Sequences:
>gi|52547303|gb|AY735451.1| Porcine circovirus isolate Hebei capsid protein gene, complete
cds
ATGACGTATCCAAGGAGGCGTTACCGGAGAAGAAGACACCGCCCCCGCAGCCATCT
TGGCCAGATCCTCC
GCCGCCGCCCCTGGCTCGTCCACCCCCGCCACCGTTACCGCTGGAGAAGGAAAAAC
GGCATCTTCAACAC
CCGCCTCTCCCGCACCTTCGGATATACTATCAAGCGAACCACAGTCAAAACGCCCTC
CTGGGCGGTGGAC
ATGATGAGATTCAATATTAATGACTTTCTTCCCCCAGGAGGGGGCTCAAACCCCCGC
TCTGTGCCCTTTG
AATACTACAGAATAAGAAAGGTTAAGGTTGAATTCTGGCCCTGCTCCCCGATCACCC
AGGGTGACAGGGG
AGTGGGCTCCAGTGCTGTTATTCTAGATGATAACTTTGTAACAAAGGCCACAGCCCT
CACCTATGACCCC
TATGTAAACTACTCCTCCCGCCATACCATAACCCAGCCCTTCTCCTACCACTCCCGCT
ACTTTACCCCCA
AACCTGTCCTAGATTCCACTATTGATTACTTCCAACCAAACAACAAAAGAAATCAGC
TGTGGCTGAGACT
ACAAACTGCTGGAAATGTAGACCACGTAGGCCTCGGCACTGCGTTCGAAAACAGTA
TATACGACCAGGAA
TACAATATCCGTGTAACCATGTATGTACAATTCAGAGAATTTAATCTTAAAGACCCC
CCACTTAACCCTT
AG
Translated Sequences:
5'3' Frame 1
Met T Y P R R R Y R R R R H R P R S H L G Q I L R R R P W L V H P R H R Y R W R R K
N G I F N T R L S R T F G Y T I K R T T V K T P S W A V D Met Met R F N I N D F L P P
G G G S N P R S V P F E Y Y R I R K V K V E F W P C S P I T Q G D R G V G S S A V I L
D D N F V T K A T A L T Y D P Y V N Y S S R H T I T Q P F S Y H S R Y F T P K P V L D
S T I D Y F Q P N N K R N Q L W L R L Q T A G N V D H V G L G T A F E N S I Y D Q E
Y N I R V T Met Y V Q F R E F N L K D P P L N P Stop
5'3' Frame 2
Stop R I Q G G V T G E E D T A P A A I L A R S S A A A P G S S T P A T V T A G E G K T
A S S T P A S P A P S D I L S S E P Q S K R P P G R W T Stop Stop D S I L Met T F F P Q E
G A Q T P A L C P L N T T E Stop E R L R L N S G P A P R S P R V T G E W A P V L L
F Stop Met I T L Stop Q R P Q P S P Met T P Met Stop T T P P A I P Stop P S P S P T T P A
5. 5
T L P P N L S Stop I P L L I T S N Q T T K E I S C G Stop D Y K L L E Met Stop T T Stop A
S A L R S K T V Y T T R N T I S V Stop P C Met Y N S E N L I L K T P H L T L
5'3' Frame 3
D V S K E A L P E K K T P P P Q P S W P D P P P P P L A R P P P P P L P L E K E K R H L
Q H P P L P H L R I Y Y Q A N H S Q N A L L G G G H D E I Q Y Stop Stop L S S P R R G
L K P P L C A L Stop I L Q N K K G Stop G Stop I L A L L P D H P G Stop Q G S G L Q C C
Y S R Stop Stop L C N K G H S P H L Stop P L C K L L L P P Y H N P A L L L P L P L L Y
P Q T C P R F H Y Stop L L P T K Q Q K K S A V A E T T N C W K C R P R R P R H C V R
K Q Y I R P G I Q Y P C N H V C T I Q R I Stop S Stop R P P T Stop P L
Primer Designing:
Forward Primer = GTGGGCTCCAGTGCTGTTAT
Reverse Primer = CGTGGTCTACATTTCCAGCA
(3) Rhodobacter sphaeroides ABC-type ATP dependent
transporter (pepE) gene, partial cds
LOCUS RSU35440 381 bp DNA linear BCT 24-NOV-1995
SOURCE Rhodobacter sphaeroides
ORGANISM Rhodobacter sphaeroides
Bacteria; Proteobacteria; Alphaproteobacteria; Rhodobacterales;
Rhodobacteraceae; Rhodobacter.
Nucleotide Sequences:
>gi|1072062|gb|U35440.1|RSU35440 Rhodobacter sphaeroides ABC-type ATP dependent
transporter (pepE) gene, partial cds
GATCCTCTGGACGCTCATTCCCTACAGCTACGACACGATCAACGACATCGGTCGCGC
GGCGCCCTCGCCG
CCCGATGCCGACCACTGGCTCGGCACCGACGACACGGCGCGCGACGTGCTGGCGCG
GGTGATCTACGGCT
TCCGCCTGTCGGTGGCCTTCGCGCTGATCGTGACCTTCCTCACCTCCGCCATCGGTAT
CGCGGCGGGCGC
GGTGCAGGGCTATTTCGGCGGGCTTACCGACCTGATCTTCCAGCGGGTGATCGAGCT
CTGGGGCTCGACC
CCCTCGCTCTATATCATCATCATCGTGGCCGCGATCTGGCAGATGAACTTCTGGCTTC
TCGTGGGCCTCA
TGGTGCTCTTCGGCTGGACGAGCCTGATCGG
Translated Sequences:
5'3' Frame 1
R S L V V L Q Y A D G I V F V G E N P S R A L H K F S E I Y D R I G F A A A G K Y N E
6. 6
Y E N L R I G G V R Y A D L R G Y T Y D R D D V T A R G L A N V Y A Q T L G T I F S S
A A E K P Y E V E L V V A E V G S A P E G D Q I Y R L P H D G S I V D E H G S V A V G
G N A E Q I S S F L D Q R H R D G Met T L A E A L K L A V Q A
5'3' Frame 2
A A S L C C S Met P T A L F S S A R T R P A R C T S S A R S T T G S A S R P P A S T T S
T R T S A S A V C A T P T C A G T P T T A T T Stop R P V G W P T S T P R R S A P S S P
A R P K S R T R W S W S S P R W A P R P R V T R S T G C R T T V R S W T S T A R S R S
A A T P N R S A A S W T S A T A T A Stop R S P R R S S W P S R R
5'3' Frame 3
Q P R C A A V C R R H C F R R R E P V P R A A Q V Q R D L R P D R L R G R R Q V Q R
V R E P P H R R C A L R R P A R V H L R P R R R D G P W A G Q R L R P D A R H H L L
Q R G R K A V R G G A G R R R G G L R A R G Stop P D L P A A A R R F D R G R A R L
G R G R R Q R R T D Q Q L P G P A P P R R H D A R R G A Q A G R P G A
Primer Designing:
Forward Primer = TCTGGACGCTCATTCCCTAC
Reverse Primer = GCTGGAAGATCAGGTCGGTA
(4) Streptomyces sp. Ht 020 PrcA (prcA) gene, partial cds
LOCUS EU527354 479 bp DNA linear BCT 12-APR-2008
SOURCE Streptomyces sp. Ht 020
ORGANISM Streptomyces sp. Ht 020
Bacteria; Actinobacteria; Streptomycetales; Streptomycetaceae;
Streptomyces.
Nucleotide Sequences:
>gi|175941398|gb|EU527354.1| Streptomyces sp. Ht 020 PrcA (prcA) gene, partial cds
CGCAGCCTCGTTGTGCTGCAGTATGCCGACGGCATTGTTTTCGTCGGCGAGAACCCG
TCCCGCGCGCTGC
ACAAGTTCAGCGAGATCTACGACCGGATCGGCTTCGCGGCCGCCGGCAAGTACAAC
GAGTACGAGAACCT
CCGCATCGGCGGTGTGCGCTACGCCGACCTGCGCGGGTACACCTACGACCGCGACG
ACGTGACGGCCCGT
GGGCTGGCCAACGTCTACGCCCAGACGCTCGGCACCATCTTCTCCAGCGCGGCCGA
AAAGCCGTACGAGG
TGGAGCTGGTCGTCGCCGAGGTGGGCTCCGCGCCCGAGGGTGACCAGATCTACCGG
CTGCCGCACGACGG
7. 7
TTCGATCGTGGACGAGCACGGCTCGGTCGCGGTCGGCGGCAACGCCGAACAGATCA
GCAGCTTCCTGGAC
CAGCGCCACCGCGACGGCATGACGCTCGCCGAGGCGCTCAAGCTGGCCGTCCAGGC
GCT
Translated Sequences:
5'3' Frame 1
R S L V V L Q Y A D G I V F V G E N P S R A L H K F S E I Y D R I G F A A A G K Y N E
Y E N L R I G G V R Y A D L R G Y T Y D R D D V T A R G L A N V Y A Q T L G T I F S S
A A E K P Y E V E L V V A E V G S A P E G D Q I Y R L P H D G S I V D E H G S V A V G
G N A E Q I S S F L D Q R H R D G Met T L A E A L K L A V Q A
5'3' Frame 2
A A S L C C S Met P T A L F S S A R T R P A R C T S S A R S T T G S A S R P P A S T T S
T R T S A S A V C A T P T C A G T P T T A T T Stop R P V G W P T S T P R R S A P S S P
A R P K S R T R W S W S S P R W A P R P R V T R S T G C R T T V R S W T S T A R S R S
A A T P N R S A A S W T S A T A T A Stop R S P R R S S W P S R R
5'3' Frame 3
Q P R C A A V C R R H C F R R R E P V P R A A Q V Q R D L R P D R L R G R R Q V Q R
V R E P P H R R C A L R R P A R V H L R P R R R D G P W A G Q R L R P D A R H H L L
Q R G R K A V R G G A G R R R G G L R A R G Stop P D L P A A A R R F D R G R A R L
G R G R R Q R R T D Q Q L P G P A P P R R H D A R R G A Q A G R P G A
Primer Designing:
Forward Primer = CGGCAAGTACAACGAGTACG
Reverse Primer = CAGCCGGTAGATCTGGTCAC
(5) Candidatus Phytoplasma mali partial 16S rRNA gene,
strain AP-C1
LOCUS AM749199 921 bp DNA linear BCT 30-JUL-2009
SOURCE Candidatus Phytoplasma mali
ORGANISM Candidatus Phytoplasma mali
Bacteria; Tenericutes; Mollicutes; Acholeplasmatales;
Acholeplasmataceae; Candidatus Phytoplasma; 16SrX (Apple
proliferation group
Nucleotide Sequences:
>gi|193812163|emb|AM749199.1| Candidatus Phytoplasma mali partial 16S rRNA gene, strain
AP-C1
9. 9
F Stop R Y L Met N K P R L T Met C Q Q L R Stop Y Met G G K R Y P D L L G V K G
V Stop A VStop Stop V Y G I S S T L N V V Met L W K L F D Stop S W I E A S G I P C V
A V K C V N I W R N T S S E G G L L G L N Stop R Stop G T K A W G A N R I R Y P G S P
R R K RStop V L S V G L N Q C Stop S Stop H I K Y S A Stop V V R T Q V Stop N L K E L
T G L R T S G G S C C L I R R Y T K N L T R S Stop H T L Q S Y R N I V E V I R D T G G
A W L S S A R V V
5'3' Frame 3
S W K R L L R L D R K F Stop G I L K L L K D P Q G Y A K R W A C G T L V S W Stop G
N G L P R L Stop C V A G L R G Stop T A T L G L R Y G P N S Y G R Q Q Stop G I F G N
G G N S D R A T P R E R Stop N I Stop V C K V L L L K K K K Stop W K N H S D G
I Stop Stop I S P G Stop L C A S S C G N T W G A S V I R I Y W A Stop R V C R R F N K
S MetV Stop V Q R L T L Stop C Y G N C L T R V G Stop R Q V E F H V Stop R Stop N
A Stop I Y G G T P V A K A A C W V L T D A E A R K R G E Q T G L D T L V V H A V N
D E YStop V L G Stop T S A E V N T L S T P P E Stop Y V R K Y E T Stop R N Stop R D S
A Q A V D H V V Stop F E D T R K T L P G L D I L C K A I E I Stop W R L S G I Q V V H
G C R Q L V S Stop
Primer Designing:
Forward Primer = CTACGGGAGGCAGCAGTAAG
Reverse Primer = TAAATCCGGATAACGCTTGC
