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Table 1 Summary of results from the in silico analysis of PAG genes in the bovine genome.

From: Characterization of the bovine pregnancy-associated glycoprotein gene family – analysis of gene sequences, regulatory regions within the promoter and expression of selected genes

Gene name

PAG grouping

Transcript ID

REFSEQ number/

Temporary Gene ID

GLEAN

Chromosome

location

Comment

Missing exons

BOPAG-1

Modern

M73962

NM_174411

10324

ChrUn.13

full-length

 

BOPAG-2

Ancient

L06151

NM_176614

19448

Chr29.48

full-length

 

BOPAG-2 like

Ancient

XM_001252523

Temporary ID:786

10441

 

predicted; partial

Partial exon-6

BOPAG-3

Modern

XM_615231

Temporary ID:2418

24765

Chr29.54

full-length

 

BOPAG-4

Modern

AF020506

NM_176615

10334

ChrUn.13

full-length

 

BOPAG-4 like

Modern

XM_600174

 

24769

 

predicted; full length

 

BOPAG-5

Modern

 

NM_176616

18735

ChrUn.278

full-length

 

BOPAG-5 like

Modern

XM_001252636

Temporary ID:3317

13899

ChrUn.1071

predicted; full length

 

BOPAG-5 like

Modern

XM_001252636

 

10439

ChrUn.833

predicted; full length

 

BOPAG-5 like

Modern

XM_598365

 

10317

 

predicted: partial

Missing Exons 1–2

BOPAG-6

Modern

AF020508

NM_176617

24763

Chr29.54

full-length

 

BOPAG-7

Modern

BC133469

 

NR

 

full-length

 

BOPAG-7 like

Modern

 

NM_176618

NR

 

Splice variant

 

BOPAG-7-like

Modern

 

NM_001109978

13897

ChrUn.1071

predicted; partial

Missing Exon 6

BOPAG-8

Ancient

AF020510

NM_176619

24771

Chr29.54

full-length

 

BOPAG-9

Modern

AF020511

NM_176620

18917

ChrUn.1099

full-length

 

BOPAG-10

Ancient

AF020512

NM_176621

19477

Chr29.48

full-length

 

BOPAG-10-like

Ancient

XM_864803

Temporary ID:2428

19475

Chr29.48

predicted; partial

Misisng Exon 9

BOPAG-10-like

Ancient

XM_864803

Temporary ID:2805

19476

Chr29.48

predicted; partial

Misisng Exon 9

BOPAG-11

Ancient

AF_020513

NM_176623

24761;24762

Chr29.54

full-length

 

BOPAG-12

Ancient

AF_020514

NM_176622

19478

Chr29.48

full-length

 

BOPAG-12-like

Ancient

 

Temporary ID:3319

10442

ChrUn.833

predicted;partial

Partial exon 5

BOPAG-13

Ancient

AF_192330

 

NR

 

not represented

 

BOPAG-14

Modern

AF_192331

 

NR

 

not represented

 

BOPAG-15

Modern

AF_192332

NM_176624

10338

ChrUn.13

full-length

 

BOPAG-16

Modern

AF_192333

NM_176625

10332

ChrUn.13

full-length

 

BOPAG-16-like

Modern

XM_596391

Temporary ID:391

10319

ChrUn.13

predicted;full length

 

BOPAG-17

Modern

AF_192334

NM_176627

17225*

 

* Model error

 

BOPAG-17-like

Modern

XM_001252975

Temporary ID:2324

10321

ChrUn.13

predicted;partial

Missing exon 5

BOPAG-18

Modern

AF_192335

NM_176626

18733

ChrUn.278

full-length

 

BOPAG-19

Modern

AF_192336

NM_176628

10322

ChrUn.13

full-length

 

BOPAG-19-like

Modern

XM_001253033

Temporary ID:535

10323

ChrUn.13

predicted;full length

 

BOPAG-19-like

Modern

 

Temporary ID: 2015

10327

ChrUn.13

predicted:partial

Misisng Exon 9

BOPAG-19-like

Modern

 

Temporary ID:994

10328

ChrUn.13

predicted;partial

 

BOPAG-20

Modern

AF_192337

NM_176629

10330

ChrUn.13

full-length

 

BOPAG-21

Modern

AF_192338

NM_176630

10329

ChrUn.13

full-length

 

BOPAG-22

Modern

AY911498

 

NR

 

not represented

 
  1. * Model error: The GLEAN model has an error. The displayed sequence does not match the GLEAN model sequence.
  2. NR: GLEAN model was not represented in the bovine genome build.