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Table 2 Comparison of the HRP isoenzyme sequences between GenBank, UniProt, transcriptome and verified genome sequences

From: Peroxidase gene discovery from the horseradish transcriptome

HRP

Sanger sequence

Transcriptome sequence

GenBank sequence

UniProt sequence

Nt

aa (exon)/intron

nt

aa

nt

aa (exon)/intron

aa

C1A

TA

Y37

-

-

AT

I37

Y37

109-110

109-110

C1159

intron

-

intron

G1159

intron

-

C1B

T/C253

intron

-

intron

T253

intron

-

T/C859

intron

-

intron

C859

intron

-

C1C

ss

ss

ss

ss

*

*

*

nt1-60

aa1-20

nt1-60

aa1-20

C178

R60

C178

R60

A118

S40

S40

A/T1335

intron

-

intron

-

-

-

A/G1888

T/A165

A/G493

T/A165

G433

A145

A145

C1889

A165

C/T1889

A/V165

   

C/G1921

Q/E176

C/G526

Q/E176

G466

E156

E156

C2

CT

intron

-

intron

*

intron

-

1250-1251

A1334

intron

-

intron

*

intron

-

C3

G/T1294

intron

-

intron

G1294

intron

-

A/T1323

intron

-

intron

A1323

intron

-

T/C1484

L231

-

-

T1484

L231

L231

C/T1541

F250

-

-

C1541

F250

F250

A2

ss

ss

ss

ss

-

-

*

nt1-93

aa1-31

1-93

aa1-31

AAT

N78

AAT

N47

-

-

D47

231-234

231-234

GGA

G220

GGA

G220

-

-

N189

996-998

661-663

AAT

N221

AAT

N221

-

-

G190

999-1001

664-666

ACG

T284

ACG

T284

-

-

L253

1185-1187

850-852

G/A1203

A/T290

G868

A290

-

-

A259

AAT

N334

AAT

N334

-

-

D303

1335-1337

999-1002

E5

ss

ss

ss

ss

-

-

*

nt1-81

aa1-27

nt1-81

aa1-27

T419

L82

C/T246

L82

-

-

L55

C422

D83

T/C249

D83

-

-

D56

C545

C124

T/C372

C124

-

-

C97

01805

None

none

none

none

-

-

-

22684

G1611

R337

A1010

K337

-

-

-

TGA

D343

CGG

G343

-

-

-

1627-1629

1026-1028

01350

None

none

none

none

-

-

-

02021

None

none

none

none

-

-

-

03523

None

none

none

none

-

-

-

06117

T30

V10

C/T30

V10

-

-

-

C1088

I269

T807

I269

-

-

-

17517

T190

Y64

C190

H64

-

-

-

C1157

G282

T846

G282

-

-

-

A1232

K307

G921

K307

-

-

-

08562.1

None

none

none

none

-

-

-

08562.4

None

none

none

none

-

-

-

23190

T1345

S109

G1345

S109

-

-

-

C1423

G135

T1423

G135

-

-

-

T1842

S222

T/C1842

S/P222

   

C1850

T224

A/C1850

T224

-

-

-

A2221

E348

T/A2221

V/E348

-

-

-

04663

None

none

none

none

-

-

-

06351

None

none

none

none

-

-

-

05508

G/A346

A/T116

G/A346

A/T116

-

-

-

22489

-

-

G/A597

T199

-

-

-

.

.

G/T715

A/S239

-

-

-

  1. All nucleotide (nt) and amino acid (aa) positions were calculated from the start ATG. Variations between the nt positions of the transcriptome sequence compared to other sequence sources are either due to deletions or intronic sequences in the other sources. “-“ indicates that no sequence information is available from the respective source. “ss” indicates a putative signal sequence. Deletions or missing sequences are marked with “*”. “N/NX” indicates a variation at position X. “None” indicates that no polymorphisms or differences between transcriptome and genome sequence were found. The isoenzymes C1A and C3 were detected in the transcriptome raw reads with only partial/low coverage (0-2x), thus no consensus sequence was formed.