Proposed new names for all Arabidopsis MIPs
| New Name1-a | Johanson et al.1-b | Weig et al.1-c | AGI Gene1-d | BAC Gene1-e | Accession No.1-f | Expressed Sequence Tag (EST)1-g | Comments1-h |
|---|---|---|---|---|---|---|---|
| PIP1;1 | PIP1a | PIP1a | At3g61430 | F2A19.30 | CAB71073 | Yes | |
| PIP1;2 | PIP1b | PIP1b | At2g45960 | F4I18.6 | AAC28529 | Yes | AthH2, TMP-A |
| PIP1;3 | PIP1c | PIP1c | At1g01620 | F22L4.16 | AAF81320 | Yes | TMP-B |
| PIP1;4 | PIP1e | TMP-C | At4g00430 | F5I10.2 | AAF02782 | Yes | Exon 2 ends at 86,121, not 86,097; compare with TMP-C. |
| PIP1;5 | PIP1d | pCR55 | At4g23400 | F16G20.100 | CAA20461 | Yes | |
| PIP2;1 | PIP2a | PIP2a | At3g53420 | F4P12_120 | CAB67649 | Yes | |
| PIP2;2 | PIP2b | PIP2b | At2g37170 | T2N18.7 | AAD18142 | Yes | |
| PIP2;3 | PIP2c | RD28 | At2g37180 | T2N18.6 | AAD18141 | Yes | |
| PIP2;4 | PIP2f | T04164 | At5g60660 | MUP24.8 | BAB09839 | Yes | |
| PIP2;5 | PIP2d | – | At3g54820 | F28P10.200 | CAB41102 | Yes | |
| PIP2;6 | PIP2e | T22419 | At2g39010 | T7F6.18 | AAC79629 | Yes | |
| PIP2;7 | PIP3a | PIP3 | At4g35100 | M4E13.150 | CAA17774 | Yes | Salt-stress-inducible MIP |
| PIP2;8 | PIP3b | – | At2g16850 | F12A24.3 | AAC64216 | Yes | |
| – | Pseudo PIP3 | – | At2g16830 | F12A24.1 | AAC64228 | ? | Pseudogene encoding 26 amino acids with second NPA. Similar to F12A24.3. |
| – | – | – | – | T8O111-i | 77,410–77,455 | ? | Partial F5I10.2-like sequence encoding helix 4. |
| – | – | – | – | F5I101-i | 77,564–77,656 | ? | Partial F5I10.2-like sequence encoding loop B and helix 3. |
| TIP1;1 | γTIP1 | γTIP | At2g36830 | T1J8.1 | AAD31569 | Yes | |
| TIP1;2 | γTIP2 | Z30833, T21060,T22237 | At3g26520 | MFE16.3 | BAB01832 | Yes | Salt-stress-inducible TIP, γTIP2 |
| TIP1;3 | γTIP3 | – | At4g01470 | F11O4.1 | AAC62778 | ? | No introns |
| TIP2;1 | δTIP1 | δTIP | At3g16240 | MYA6.5 | BAB01264 | Yes | |
| TIP2;2 | δTIP2 | Z18142 | At4g17340 | d14705w | CAB10515 | Yes | |
| TIP2;3 | δTIP3 | T20432,T76151 | At5g47450 | MNJ7.4 | BAB09071 | Yes | |
| TIP3;1 | αTIP | αTIP | At1g73190 | T18K17.14 | AAG52132 | Yes | |
| TIP3;2 | βTIP | βTIP | At1g17810 | F2H15.4 | AAF97261 | Yes | |
| TIP4;1 | ɛTIP | T21742 | At2g25810 | F17H15.16 | AAC42249 | Yes | Similar to NtTIPa |
| TIP5;1 | ζTIP | – | At3g47440 | T21L8.190 | CAB51216 | ? | |
| – | Pseudo-γTIP2 | – | – | F7P11-i | 79,395–79,728 | ? | Pseudogene similar to MFE16.3, truncated, NPV instead of NPA, no exon 2. |
| – | Pseudo-δTIP | – | At1g52180 | F9I5.3 | AAF29403 | ? | Pseudogene, only exon 2, 124 amino acids. |
| NIP1;1 | NLM1 | NLM1 | At4g19030 | F13C5.200 | CAA16760 | Yes | Misannotated: delete amino acids 205 through 216; exon 4 starts at 86,879, not 86,915. |
| NIP1;2 | NLM2 | NLM2 | At4g18910 | F13C5.80 | CAA16748 | Yes | |
| NIP2;1 | NLM3 | NLM4 | At2g34390 | T31E10.27 | AAC26712 | Yes1-j | |
| NIP3;1 | NLM9 | – | At1g318801-k | F5M6.28 | AAG50717 | ? | F5M6.28 is missing exon 1; exon 1, 38,681 through 38,550; exon 2 starts at 38,310, long C terminus. |
| NIP4;1 | NLM4 | – | At5g37810 | K22F20.9 | BAB10360 | ? | |
| NIP4;2 | NLM5 | NLM5 | At5g37820 | K22F20.10 | BAB10361 | Yes1-j | |
| NIP5;1 | NLM6 | NLM8 | At4g10380 | F24G24.180 | CAB39791 | Yes | Long N terminus. |
| NIP6;1 | NLM7 | NLM7 | At1g80760 | F23A5.11 | AAF14664 | Yes | Long N terminus. |
| NIP7;1 | NLM8 | NLM6 | At3g06100 | F28L1.3 | AAF30303 | Yes | Intron 3, 8,151 through 7,945, avoids TT acceptor splice site, restores conserved length of exon 4. |
| – | Pseudo-NLM3 | NLM3 | At2g29870 | T27A16.3 | AAC35214 | ? | Pseudogene encoding 139 amino acids, missing first NPA. |
| – | Pseudo-NLM9 | – | At2g21020 | F26H11.22 | AAD29814 | ? | Pseudogene, version 3 missing second NPA. Alternate annotation results in two NPAs, but missing helix 3 and 4, long C terminus. |
| SIP1;1 | SIP1a | – | At3g04090 | T6K12.29 | AAF26804 | Yes | |
| SIP1;2 | SIP1b | – | At5g18290 | MRG7.25 | BAB09487 | Yes | |
| SIP2;1 | SIP2 | – | At3g56950 | F24I3.30 | CAB72165 | Yes |
↵F1-a Proposed new names for Arabidopsis MIPs. When referring to the corresponding gene, the name is written in italics. Genes encoding partial MIP-like sequences without all transmembrane regions are regarded as nonfunctional pseudogenes. Pseudogenes are not included in the proposed nomenclature as indicated by “–”.
↵F1-b Nomenclature used inJohansson et al. (2000) and in U. Johanson and S. Gustavsson (unpublished data).
↵F1-c Nomenclature used in Weig et al. (1997) and Weig and Jakob (2000a, 2000b).
↵F1-d Arabidopsis Genome Initiative (AGI) gene nomenclature; At3g56950 indicates gene no. 5,695 (counting from top) on chromosome 3.
↵F1-e Gene name used in annotation of bacterial artificial chromosome (BAC) or P1 sequences.
↵F1-f Protein accession no. for a translation of the corresponding gene. When a gene annotation is missing, the location in the BAC is given in base pairs.
↵F1-g Matching EST found in databases. ?, Not found.
↵F1-h Alternative exon/introns positions proposed and used in this paper and odd features of the gene or the encoded protein. Some older names found in the literature (Kaldenhoff et al., 1993; Shagan and Bar-Zvi, 1993; Shagan et al., 1993; Pih et al., 1999) and in Genbank accession no.AF057137.
↵F1-i Not annotated.
↵F1-j cDNA cloned by reverse transcriptase-PCR (Weig and Jakob, 2000b).
↵F1-k At1g31880 has 285 amino acids added at the N terminus, previously annotated as a separate gene (F5M6.11). At1g31880 is missing 29 amino acids close to the C terminus.