Nr.

UCR cluster span

Nr UCRs

Gene Symbol

Gene Description

InterPro domain(s)

Evidence for involvement  in embryonic development?

(PubMed reference in brackets)

1.       

chr15:32.7M-36.2M

84

MEIS2

Meis1, myeloid ecotropic viral integration site 1 homolog 2 

Homeobox

YES [12880965]

2.       

chr2:143.5M-147.8M

81

ZFHX1B

zinc finger homeobox 1b

Homeobox

Zn-finger, C2H2 type

YES [15006694]

3.       

chr19:34.8M-37.8M

80

ZNF536

KIAA0390 gene product (zinc finger)

Znf_C2H2, NLS_BP

YES [10819330]

4.       

chr10:129.6M-132.1M

79

EBF3

COE3 (Early B-cell factor 3, EBF-3)

 

YES [14732407]

5.       

chr10:76.5M-79.1M

77

ZNF503

zinc finger protein 503


Znf_PHD

Znf_C2H2 Eggshell

YES [14983057]

6.       

chr16:52.9M-55.6M

64

IRX-3

IRX-5

IRX-6

Iroquis-class protein IRX-3
Iroquis-class protein IRX-5
Iroquis-class protein IRX-6

Homeobox

Homeobox

Homeobox

YES [12100884]

7.       

chr9:121.2M-123.3M

62

PBX3

pre-B-cell leukemia transcription factor 3

PBX

Homeobox

YES [15466398]

8.       

chr5:90.6M-94.4M

62

NR2F1

nuclear receptor subfamily 2, group F, member 1

Hormone_rec_lig

Stdhrmn_receptor

Str_ncl_receptor

Znf_C4steroid

YES [11784326]

9.       

chr7:112.9M-115.4M

60

FOXP2 ;
TFEC

forkhead box P2 (immune tolerance development) ;
Similar to transcription factor EC

Involucrin_rpt TF_Fork_head Znf_C2H2
-------
HLH_basic 

YES [12876151]

10.     

chr13:70.2M-72.5M

52

DACH

dachshund homolog (Drosophila)

Transform_Ski

YES [10767315]

11.     

chr10:102.1M-104.6M

52

PAX2

paired box gene 2 (kidney, differentiation, eyes, CNS)

Paired_box Homeobox  

YES [15242798]

12.     

chr3:69.5M-71.7M

52

FOXP1

forkhead box P1

TF_Fork_head
Znf_C2H2  

YES [12687690]

13.     

chr2:58.3M-61.2M

48

BCL11A

B-cell lymphoma/leukemia 11A (COUP-TF interacting protein 1)

Znf_C2H2

YES [12711548]

14.     

chr5:1.7M-5.1M

46

IRX-4;

IRX-2;

IRX-1

Homeobox protein IRX-4;
Homeobox protein IRX-2;
Homeobox protein IRX-1

Homeobox  

Homeobox  

Homeobox  

YES

[11335133], [11455441]

15.     

chr2:175.7M-178.0M

46

ATF-2;
EVX-2;
HOX-D*

activating transcription factor 2 (brain) ;

Homeobox even-skipped homolog protein 2 (EVX-2) ;

HOX-D cluster

Znf_C2H2 TF_bZIP

--------------------

Homeobox Antifreeze_1 HTH_lambrepressr CytC_heme_bind

--------------------

Homeobox HTH_lambrepressr

YES [8978698]

16.     

chr2:155.9M-158.3M

41

NR4A2

nuclear receptor subfamily 4, group A, member 2 (brain)

Znf_C4steroid
Hormone_rec_lig
NURR_receptor
Nucorph_receptor
Stdhrmn_receptor
Rtnoid_receptor
VitD_receptor  

YES [15009684]

17.     

chr1:62.3M-63.6M

39

FOXD3

forkhead, box D3

TF_Fork_head

YES [11262245]

18.     

chr1:89.5M-91.1M

38

LMO4 ;

KIAA1221

LIM domain only 4;

KIAA1221 (brain-specific zinc finger protein)

LIM

-----------

Znf_C2H2

YES [12619132]

19.     

chr18:71.7M-74.1M

38

ZNF407

zinc finger protein 407

Znf_C2H2

NO

20.     

chr2:65.6M-67.9M

35

MEIS1

Meis1, myeloid ecotropic viral integration site 1 homolog (mouse)

Homeobox

YES [12183364]

21.     

chr8:105.2M-106.9M

35

ZFPM2

zinc finger protein, multitype 2 ((FOG-2)  (Friend of GATA-2)

Znf_C2H2  

YES [12213678]

22.     

chr16:50.2M-52.9M

35

TNRC9

trinucleotide repeat containing 9 (HMG box DNA binding protein)

Highmoblty_12
HMG-box
HMG_12_box

NO

23.     

chr8:76.2M-78.3M

33

ZFH4

zinc finger homeodomain 4

AMP-bind

Homeobox

Somatotropin

Znf_C2H2

Znf_U1

NO

24.     

chr11:14.9M-17.0M

32

SOX6

SRY (sex determining region Y)-box 6

HMG_12_box ATP_GTP_A NLS_BP  

YES [12571105]

25.     

chr9:15.5M-17.8M

31

BNC2

Basonuclin 2

CytC_heme_BS
Znf_C2H2

NO

26.     

chr5:765M-779M

31

OTP

orthopedia homolog

Homeobox Homeo_OAR HTH_lambrepressr  

YES [11071765]

27.     

chr10:114.0M-115.5M

30

TCF7L2

transcription factor 7-like 2 (T-cell specific, HMG-box)

HMG-box

YES [11845287]

28.     

chr18:74.9M-76.9M

30

SALL3

Sal-like protein 3 (Zinc finger protein SALL3) (hSALL3)

Znf_C2H2

YES [10610715]

29.     

chr10:124.4M-125.7M

27

BUB3

Mitotic checkpoint protein BUB3

WD40

YES [10995385]

30.     

chr6:8.1M-10.9M

26

TFAP2A

Transcription factor AP-2 alpha (AP2-alpha)

TF_AP2
TF_AP2_alpha

YES [14534133]

31.     

chr4:84.6M-86.2M

26

NKX6-1

Homeobox protein NKX-6.1

Homeobox HTH_lambrepressr PRO_rich  

YES [15456722]

32.     

chr1:9.8M-11.0M

25

FLJ20321

Hypothetical protein FLJ20321 (zinc finger)

Znf_C2H2
ATP_GTP_A
NLS_BP

NO

33.     

chr8:64.5M-66.4M

25

BHLHB5

Basic helix-loop-helix domain containing, class B, 5

HLH_basic

YES [14643684]

34.     

chr20:20.4M-21.9M

25

NKX-2.2

Homeobox protein NKX-2.2

Homeobox

-------------

Paired_box

YES [8575293]

35.     

chr16:71.5M-74.1M

25

ATBF1

Alpha-fetoprotein enhancer binding protein (AT motif-binding factor)

Homeobox
Znf_C2H2

YES [12926016]

36.     

chr1:86.6M-88.5M

22

LMO4

LIM domain transcription factor LMO4 (LIM-only protein 4) (LMO-4) 

LIM

YES  [12619132]

37.     

chr7:68.5M-69.9M

22

AUTS2

Autism susceptibility candidate (unknown function)

P_rich_extensn
NLS_BP

YES [12160723]

38.     

chr6:97.3M-100.5M

22

POU3F2

Nervous-system specific octamer-binding transcr. factor N-Oct-3

Homeobox
POU_domain
POU_homeo

YES [10064882]

39.     

chr10:118.4M-120.8M

21

EMX2

Homeobox protein EMX2 (empty spiracles homolog 2 (Drosophila))

Homeobox

YES [15501221]

40.     

chr18:22.1M-23.2M

21

EHZF

Early hematopoietic zinc finger (LYST-interacting protein LIP3)

Znf_C2H2

NO

41.     

chr11:7.8M-8.8M

20

LMO1

LIM domain only 1 (rhombotin 1) (expressed mainly in CNS)

LIM

YES [1507224]

42.     

chr3:158.6M-159.9M

20

SHOX2

Short stature homeobox protein 2 (Homeobox protein Og12X)

Homeobox
Homeo_OAR
HTH_lambrepressr
Paired_homeo

YES [14769946]

43.     

chr4:111.5M-113.5M

19

PITX2

Pituitary homeobox 2 (ALL1 responsive protein ARP1)

Homeo_OAR
Homeobox
Paired_homeo

YES [14975719]

44.     

chr4:79.9M-81.2M

18

 

NOT DETERMINED

 

NO

45.     

chr2:173.8M-175.4M

18

SP3

Transcription factor Sp3 (SPR-2).

Znf_C2H2

NO

46.     

chr15:64.3M-66.1M

18

MADH3

Mothers against decapentaplegic homolog 3 (SMAD 3)

Dwarfin
Dwarfin_A
SMAD_FHA

YES [15183723]

47.     

chr9:91.1M-92.2M

18

PTCH

Patched protein homolog 1 (PTC1)

Patched family
Patched transmembrane receptor
Sterol-sensing 5TM box

YES [12917290]

48.     

chr4:147.2M-148.9M

18

POU4F2

POU domain, class 4, transcription factor 2  (Brn-3B).

Homeobox
POU_domain
POU_homeo

YES [14973295]

49.     

chr2:164.0M-165.4M

17

-

weakly similar to GC-rich sequence DNA-binding factor (GCF) [Homo sapiens]

 

NO

50.     

chr17:34.3M-35.7M

17

LHX1

LIM homeobox 1

Homeobox
LIM
LIM_homeo

YES [12799141]