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Table 2 SNP name and genomic location of the SNPs used to define the RHCE gene haplotypes

From: The RHCE gene encodes the chicken blood system I

SNP

Chr 23:bp

Location in the gene

Codon change

aa change

Ref. > Alt

RHCE haplotypes

H01

H02

H03

H04

H05

 

rs740623580

2,749,185

Exon 1

CGA > CAA

R9Q

G > A

G

G

G

G

A

 

rs869007872

2,749,241

Exon 1

TCT > TTT

S27F

C > T

C

T

T

C

C

 

rs794503708

2,749,275

Exon 1

CCC > CTC

P39L

C > T

C

T

T

C

C

 

rs733753324

2,749,792

Exon 2

TTG > TTC

L43F

G > C

G

C

G

G

G

 

rs731472668

2,749,926

Exon 2

CAT > CGT

H88R

A > G

A

G

A

A

A

 

rs738943348

2,749,941

Exon 2

CTG > CCG

L93P

T > C

T

C

T

T

T

 

rs739602946

2,749,952

Exon 2

TCA > CCA

S97P

T > C

T

C

T

T

T

 

rs738898886

2,750,212

Exon 3

ATA > ATG

I101M

A > G

A

G

A

A

A

 

rs313465722

2,750,348

Exon 3

TAT > CAT

Y147H

T > C

T

C

T

T

T

 

rs735870559

2,751,919

Exon 5

GTG > TTG

V215L

G > T

G

G

G

G

G

 

rs316593393

2,752,402

Exon 6

AAG > GAG

K272E

A > G

A

A

G

G

G

 

rs733511284

2,752,431

Exon 6

GGT > GGG

G281G

T > G

T

T

G

G

G

 

rs314800215

2,752,791

Exon 7

GAG > AAG

E325K

G > A

G

A

G

G

G

 

rs738163839

2,752,814

Exon 7

GAC > GAA

D332E

C > A

C

A

C

C

C

 

rs737604974

2,753,525

Exon 8

GAG > AAG

E343K

G > A

G

A

G

G

G

 

I system serological allele

I8

I2

I4, I8

I8

  

Line source

NIU

Line 61

UCD003

NIU

WPR1

 
      

aUCD001

NIU

RHC

WPR1

WPR2

 
      

WL1

WL1 WL2

WL2

WPR2

  
      

WL3

WL3

WL3

   
      

WL6

WL6

WL6

   
      

WL7

WL7

    

SNP

Chr 23:bp

Location in the gene

Codon change

aa change

Ref. > Alt

RHCE haplotypes

H06

H07

H08

H10

H11

 

rs740623580

2,749,185

Exon 1

CGA > CAA

R9Q

G > A

G

G

G

G

G

 

rs869007872

2,749,241

Exon 1

TCT > TTT

S27F

C > T

C

C

T

C

C

 

rs794503708

2,749,275

Exon 1

CCC > CTC

P39L

C > T

C

C

T

C

C

 

rs733753324

2,749,792

Exon 2

TTG > TTC

L43F

G > C

G

G

G

G

G

 

rs731472668

2,749,926

Exon 2

CAT > CGT

H88R

A > G

A

A

G

A

A

 

rs738943348

2,749,941

Exon 2

CTG > CCG

L93P

T > C

T

T

C

T

T

 

rs739602946

2,749,952

Exon 2

TCA > CCA

S97P

T > C

T

T

C

T

T

 

rs738898886

2,750,212

Exon 3

ATA > ATG

I101M

A > G

A

–

G

A

A

 

rs313465722

2,750,348

Exon 3

TAT > CAT

Y147H

T > C

T

–

C

T

T

 

rs735870559

2,751,919

Exon 5

GTG > TTG

V215L

G > T

G

–

T

G

G

 

rs316593393

2,752,402

Exon 6

AAG > GAG

K272E

A > G

G

–

G

G

A

 

rs733511284

2,752,431

Exon 6

GGT > GGG

G281G

T > G

G

–

G

G

T

 

rs314800215

2,752,791

Exon 7

GAG > AAG

E325K

G > A

A

–

G

G

A

 

rs738163839

2,752,814

Exon 7

GAC > GAA

D332E

C > A

A

–

C

C

A

 

rs737604974

2,753,525

Exon 8

GAG > AAG

E343K

G > A

A

–

G

A

G

 

I system serological allele

   

I8

I3

 

Line source

aUCD001

RIR

RIR

ADOL-15I5

Line 72

 
        

WPR1

NIU

WL2

 

SNP

Chr 23:bp

Location in the gene

Codon change

aa change

Ref > Alt

RHCE haplotypes

H12

H13

H14

H15

H16

H17

rs740623580

2,749,185

Exon 1

CGA > CAA

R9Q

G > A

G

G

G

G

G

G

rs869007872

2,749,241

Exon 1

TCT > TTT

S27F

C > T

T

T

C

T

C

T

rs794503708

2,749,275

Exon 1

CCC > CTC

P39L

C > T

T

T

C

T

C

T

rs733753324

2,749,792

Exon 2

TTG > TTC

L43F

G > C

C

G

G

C

G

G

rs731472668

2,749,926

Exon 2

CAT > CGT

H88R

A > G

G

A

G

G

A

A

rs738943348

2,749,941

Exon 2

CTG > CCG

L93P

T > C

C

T

C

C

T

T

rs739602946

2,749,952

Exon 2

TCA > CCA

S97P

T > C

C

T

C

C

T

T

rs738898886

2,750,212

Exon 3

ATA > ATG

I101M

A > G

–

–

A

G

–

A

rs313465722

2,750,348

Exon 3

TAT > CAT

Y147H

T > C

–

–

T

C

–

T

rs735870559

2,751,919

Exon 5

GTG > TTG

V215L

G > T

–

–

G

T

–

G

rs316593393

2,752,402

Exon 6

AAG > GAG

K272E

A > G

–

–

G

G

–

G

rs733511284

2,752,431

Exon 6

GGT > GGG

G281G

T > G

–

–

G

G

–

G

rs314800215

2,752,791

Exon 7

GAG > AAG

E325K

G > A

–

–

G

G

–

G

rs738163839

2,752,814

Exon 7

GAC > GAA

D332E

C > A

–

–

C

C

–

C

rs737604974

2,753,525

Exon 8

GAG > AAG

E343K

G > A

–

–

G

G

–

A

I system serological allele

      

Line source

WL2

WL2

WPR1

WPR1

WL1

WL6

 

WL6

WL6

  

WL6

 
  1. Also provided are codon information and predicted amino acid change based on chicken build GalGal1b.mat.broiler.GRCg7b. The I blood system allele found for each haplotype is listed when known and the specific line source of each haplotype is indicated
  2. –: Failure of PCR to provide result, Ref.: reference allele; Alt: alternate allele
  3. aUCD001 reference genome (GRCg6a) is heterozygous for RHCE- H01 and RHCE-H06
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Genetics Selection Evolution

ISSN: 1297-9686