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Table 2 Intergenic primers

From: An Sp185/333 gene cluster from the purple sea urchin and putative microsatellite-mediated gene diversification

Primer1

Sequence

Strand2

Notes3

1R

CGAAGATAAGTAATTGGT

AS

~300 bp 5'of each D1 gene

2F

GTTCTGTTTTTAGTACCG

S

RC of 12R, located ~2.2 kb 3' of all D1 genes

6F

TTGAGAGCTCGTCACGTG

S

~900 bp 3' of the D1-b gene

7F

TGCAATCATTTTACATATTACTGGTT

S

~800 bp 3' of the A2 gene

9F

GGGATTACATACCATACCGCA

S

~1 kb 3' of the B8 gene

11F

ATCCTTTGAAACAGCCCCTC

S

RC of 10R, located ~2.4 kb 3' of the D1-y gene

13F

TGGGAAATACTGACTGCC

S

RC of 5R, located ~2.7 kb 3' of the E2 gene

17F4

TTTCCAATGTCCTTATTTACGACTTATA

S

qPCR primer with 18R1

21F

AATGTATTCGGCAGCGAGGT

S

~1 kb 3' of the D1 genes

5R

GGCAGTCAGTATTTCCCA

AS

RC of 13F, located ~1.1 kb 5' of the D1-b gene

8R

AAGCCTGCTGCTCAATCATC

AS

~1.2 kb 5' of the A2 gene

10R

GAGGGGCTGTTTCAAAGGAT

AS

RC of 11F, located ~1.1 kb 5' of the B8 gene

12R

CGGTACTAAAAACAGAAC

AS

RC of 2F, located ~1 kb 5' of all D1 genes

14R

AAGTGGTGGTAGGCTCAGTAGTA

AS

~700 bp 5' of the E2 gene

18R4

ATGATTCACAGGTTTGTTGCCTC

AS

qPCR primer with 17F1

  1. 1F, forward; R, reverse
  2. 2S = sense; AS = antisense
  3. 3RC = reverse complement
  4. 4These primers amplify a unique region used to quantify the copy number of BAC plasmids in qPCR reactions.