A second-generation anchored genetic linkage map of the tammar wallaby (Macropus eugenii)

Wang, Chenwei; Webley, Lee; Wei, Ke-jun; Wakefield, Matthew J; Patel, Hardip R; Deakin, Janine E; Alsop, Amber; Marshall Graves, Jennifer A; Cooper, Desmond W; Nicholas, Frank W; Zenger, Kyall R

doi:10.1186/1471-2156-12-72

BMC Genomic Data

Table 3 Set 3 markers: reference gene, chromosome location and primer sequences

From: A second-generation anchored genetic linkage map of the tammar wallaby (Macropus eugenii)

Marker Name^a	Reference Gene	Chr	Arm	Band	Informative meioses		Primer sequences^f
					M	F
AM21	LFNG	3	p	2	90	84	F: TGCACTCCATGAAGACACTTG R: TCACTGGATTCAGATGGCTCT
ADCY1^d	RAMP3	3	p	2.3	79	97	F: ACACATAGTCACTCTCCTTTACCG R: CAGAGAAGGGAGCCTGTTTAG
ASB7	ASB7	1	q	1	85	94	F: GGTCAGAGGACAACTAGGTTGAAG R: CATACAGAGGCAAAAGCATAACTG
C2orf54	SNED	6	q	3	80	64	F: TCCTCCAAATCCTCTTCCAGT R: CACTGCAAGCACCACTGTCT
C4orf8	TNIP2	6	p	3.1	56	95	F: CATGTCACCTGGAACTTTTTCA R: GTGTTGTATAGCTCAGTTTCAGATAGC
CACNG3	AQP8	1	p	1	88	112	F: AACTTTGGTGTCTTGGTGGAA R: TTTCAGTCACTGGGCTGAAGT
CASZ1	BCL3	5	q	3	42	79	F: AATGAGGGACAAGCAAGCTC R: AGTTGACCTCAGGGCAGTGT
CDH12	CDH12	4	p	2	75	96	F: TGCTACTACCCCATCTCTCTCTC R: CTTTCCAAAAGAACCAGAGCA
CLDN18	FAIM	5	q	2	62	89	F: GCAGAGCTGGCATTAGATGA R: TTTGTTCAATGACCCCCAAT
COL4A2	ARHGEF7	6	q	2	91	58	F: GAGAGGTCAGGGAAGGGTATCT R: TAAACCAGGTACTCCTGGGAAA
DLL1	USF1	2	q	3	94	93	F: ATAGGGAATGCAGCAGGTTG R: ATCAGCTGTTCTAAGGCCACA
DNHD2	TBX20	3	p	3	16^e	70	F: CTGTCAAGTCTGAAGTGGACAGA R: GAGTTAATACTGGCGTCTTGGAG
EEF2K	KDELR2	3	p	2	83	76	F: AGGGCATCCCAAGATTCTTACT R: GCAGTGAAAATGACTAGGAGGAG
FIAM	FIAM	5	q	2	94	91	F: GCAATGCAAAGATGCACACT R: TGCTCCAGTGATGCCACTAC
GABBR2	QPRT	3	p	2	85	108	F: CTCCCAAGCTAGGAAACAACC R: CAAGACCGTATCAGAGGCAAA
HPX	CCKBR	5	q	2	86	69	F: GATCTCAGAAACATGGCCAGA R: CTGTACCCTCAAACCTTGTGC
IGF2R^b	IGF2R	NA^c	NA	NA	103	113	F: TACCTAGGTGGTTGACGCTGT R: AGACCTCACAAATTTGCCTTTC
MYCBP2	SLAIN1	6	q	2	71	42	F: CAGAGATTTTTGCCAGCAGAC R: CCCAACCTTTCAAGTAGAATGC
NOL14	NOL14	6	p	2	87	94	F: CCACCCCTCAGTGTTTCAGTAT R: GGTTAATGGGGCTTAGGATAGG
NRXN3^b	NA	NA	NA	NA	83	98	F: GTTAGGGGCACAGCAGTGTAG R: CCGCAAGTCTTTTTAGCAATC
ODZ2	NUDCD2	1	q	2	81	77	F: AGCCCATAGTCAGGCACATAC R: GCACATAGAGGGAGTTGTCCA
PTCHD1	PTCHD1	5	p	2	94	111	F: TTTTTCTTCTCCCCCGTACC R: TGGCCTTGAAGCATACTTATTG
SFTPA1^b	NA	NA	NA	NA	77	102	F: ACATGGGGGTAAAACTTGGAC R: TGAACCATGTCCTCTGACTCC
TBX4	FCRL4	2	q	3	88	88	F: TCACTCTATATCGGTCAGAGGACA R: GGTCTGGGACAGTAAATTCTTCAC
TCERG1L	TCERG1L	1	q	2	89	104	F: GACATATTAGCTGCTCTTCAGTGTTC R: GAGCTTGCTATGTCTGAAGGCTAC
TNFRSF11A	KDSR	4	p	2	101	110	F: TCTGTGTTCATTATCCGTGACA R: CATTGTGAGAAAGAGCCATCTG
TSHR	TSHR	7	q	1	97	97	F: TCTATGAGCCAAGAACTCCAGA R: GATGTTAGCAACAGAGATCATGGTA
TTHY	KIAA1012	4	q	1	78	76	F: CTCTTTCATTCCTAGACACACTGG R: GCAAGAAGAATGATGGACACAC
ZNF143	EIF4G2	6	p	3.2	92	90	F: GTTTATCACACCCAGGGACTGT R: GGTTAAGGTGCCAAAAGAGGTA

^a Set 3 markers are named after the gene within which they are found, e.g. IGF2R.
^b The reference genes for these three markers were planned for physical mapping, but not mapped at the time of primer design for markers. Therefore their physical locations were not known.
^cNot available.
^dADCY1 is FISH mapped to 3p2.3, although its reference gene RAMP3 is mapped to 1p1.
^e Meiosis number less than 19, and not included in the map construction.
^f The MgCl₂ PCR concentration for all set 3 markers is 2.5 mM.

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