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Table 1 Function of the nearest protein coding gene in Arabidopsis thaliana of positionally conserved LncRNAs

From: Positionally-conserved but sequence-diverged: identification of long non-coding RNAs in the Brassicaceae and Cleomaceae

Level of sequence conservation

Transcribed in

Abbreviation

A. thaliana LncRNA

A. thaliana gene

Function

Reference

Brass. Specific

Ath

Bras_PDE318

At1NC112890

AT1G80770

Pigment defective 318 (PDE318)

 

Brass. Specific

Ath

Bras_Root

At2NC078030

AT2G47750

Morphological Effect: Root Growth

[44]

Encodes GH3.9, a member of the GH3 family auxin-responsive genes. gh3.9-1 mutants had greater primary root length.

Brass. Specific

Ath

Bras_SaltStress

At5NC030470

AT5G24270

Response To Salt Stress

[45]

Encodes a calcium sensor that is essential for K+ nutrition, K+/Na + selectivity, and salt tolerance

Brass. Specific

Ath

Bras_SeedCoat

At5NC103231

AT5G67180

Morphological Effect: Seed Coat Mucilage

[46]

Target of early activation tagged (EAT) 3 (TOE3)

Ae. Specific

Ae

Ae_NuclStruc

At1NC016180

AT1G13230

Required for growth promotion and enhanced seed production mediated by the endophytic fungus Piriformospora indica in Arabidopsis.

 

Ae. Specific

Ae

Ae_SaltStress

At1NC070280

AT1G50640

Response To Salt Stress and Involved in Leaf Senescence. Ethylene Responsive Element Binding Factor 3 (ERF3)

[47, 48]

Ae. Specific

Ae

Ae_StomatalDev

At1NC099220

AT1G70410

Morphological Efffect: Stomatal Development

[49]

Beta Carbonic Anhydrase 4 (BCA4)

Ae. Specific

Ae

Ae_RepairPSII

Group1797

AT1G75690

Physiological Effect: Repair of Photosystem II

[50]

Low Quantum Yield of Photosystem II 1 (LQY1)

Ae. Specific

Ae

Ae_Miro2

Group4790

AT3G63150

Physiological Effect: Embryo Genesis and Mitochondrial Morphogenesis. Miro-Related GTP-ASE 2 (MIRO2)

[51]

Cleo. Specific

Cleo

Cleo_bHLH

Group4645

AT3G57800

Basic helix-loop-helix (bHLH) DNA-binding superfamily protein. Transcription Factor Family

[52]

Cleo. Specific

Cleo

Cleo_Unknown

Seed_Group2679

AT3G06020

Regulation of shootmeristem size (FAF4).

[53]

Cleo. Specific

Cleo

Cleo_CCD1

Group4801

AT3G63520

Specifically expressed in vascular tissue.

[54]

Carotenoid Cleavage Dioxygenase 1 (CCD1)

  1. ‘Level of Sequence conservation’ denotes the level of lineage specificity of the LcnRNA at the nucleotide level
  2. Ae. Specific Aethionemeae Specific, Brass. Specific Brassicaceae (including Aehtionemeae specific), Cleo Specific Cleomaceae specific, Ae Aethionemeae, Ath Arabidopsis thaliana, Cleo Cleomaceae