Basic Information
Locus ID:
CH07.2447
Species & Taxonomic ID:
Echinochloa crus-galli & 90397
Genome Assembly:
GWHBDNR00000000
Description:
Reverse transcriptase (RNA-dependent DNA polymerase)
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| CH07 | 32825613 | 32837243 | - | CH07.2447 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 9.95 | 161,130.88 Da | 64.43 | 68.23 | -0.76 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd12373 | RRM_SRSF3_like | 1172 | 1239 | 1.64794E-34 | - |
| CDD | cd01650 | RT_nLTR_like | 550 | 799 | 6.44811E-53 | - |
| Pfam | PF00078 | Reverse transcriptase (RNA-dependent DNA polymerase) | 560 | 797 | 7.9E-42 | IPR000477 |
| Pfam | PF00098 | Zinc knuckle | 1255 | 1270 | 1.8E-6 | IPR001878 |
| Pfam | PF00076 | RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) | 1173 | 1230 | 1.4E-14 | IPR000504 |
| SUPERFAMILY | SSF57756 | Retrovirus zinc finger-like domains | 1240 | 1272 | 1.62E-8 | IPR036875 |
| SUPERFAMILY | SSF56672 | DNA/RNA polymerases | 483 | 862 | 8.15E-22 | IPR043502 |
| SUPERFAMILY | SSF56219 | DNase I-like | 149 | 262 | 2.01E-5 | IPR036691 |
| SUPERFAMILY | SSF103511 | Chlorophyll a-b binding protein | 103 | 144 | 2.88E-6 | - |
| SUPERFAMILY | SSF54928 | RNA-binding domain, RBD | 1155 | 1231 | 1.48E-16 | IPR035979 |
| Gene3D | G3DSA:3.30.70.330 | - | 1166 | 1238 | 1.0E-17 | IPR012677 |
| Gene3D | G3DSA:3.60.10.10 | Endonuclease/exonuclease/phosphatase | 127 | 274 | 2.0E-14 | IPR036691 |
| Gene3D | G3DSA:3.30.70.270 | - | 595 | 772 | 5.6E-8 | IPR043128 |
| Gene3D | G3DSA:4.10.60.10 | - | 1239 | 1306 | 1.6E-6 | - |
| SMART | SM00360 | rrm1_1 | 1172 | 1238 | 1.6E-17 | IPR000504 |
| SMART | SM00343 | c2hcfinal6 | 1255 | 1271 | 1.1E-4 | IPR001878 |
| ProSiteProfiles | PS50102 | Eukaryotic RNA Recognition Motif (RRM) profile. | 1171 | 1240 | 15.306254 | IPR000504 |
| ProSiteProfiles | PS50878 | Reverse transcriptase (RT) catalytic domain profile. | 537 | 799 | 23.101923 | IPR000477 |
| ProSiteProfiles | PS50158 | Zinc finger CCHC-type profile. | 1255 | 1270 | 10.822997 | IPR001878 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1385 | 1414 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 946 | 978 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1348 | 1384 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 960 | 978 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1048 | 1109 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1277 | 1414 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1284 | 1306 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1311 | 1325 | - | - |
| Coils | Coil | Coil | 376 | 396 | - | - |
Gene Ontology
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT2G24590.1 | RNA recognition motif and CCHC-type zinc finger domains containing protein. | 1.2E-53 |
| RefSeq | XP_050128453.1 | uncharacterized protein LOC126605128 isoform X1 [Malus sylvestris] | 0 |
| Q6K9C3 | Serine/arginine-rich splicing factor RSZ23 OS=Oryza sativa subsp. japonica OX=39947 GN=RSZ23 PE=2 SV=1 | 9.65E-69 | |
| TrEMBL | A0A8T0UDJ9 | Reverse transcriptase domain-containing protein OS=Panicum virgatum OX=38727 GN=PVAP13_3NG093260 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| No sample metadata found. | |||||||
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg22385, Sbi_jg25863 |
| Amaranthaceae | Suaeda aralocaspica | 2 | GOSA_00007598, GOSA_00020792 |
| Amaranthaceae | Suaeda glauca | 1 | Sgl20234 |
| Amaranthaceae | Chenopodium album | 6 | gene:ENSEOMG00000007376, gene:ENSEOMG00000009922 ... |
| Amaranthaceae | Chenopodium quinoa | 3 | CQ.Regalona.r1.4AG0021820, CQ.Regalona.r1.6AG0000030 ... |
| Asteraceae | Flaveria trinervia | 16 | Ftri11G29042, Ftri15G13285, Ftri15G27723, Ftri16G20483 ... |
| Poaceae | Echinochloa crus-galli | 51 | AH01.164, AH01.394, AH02.1450, AH02.1545, AH02.2093, AH05.25 ... |
| Poaceae | Eleusine coracana subsp. coracana | 1 | gene-QOZ80_4BG0332600 |
| Poaceae | Hordeum vulgare | 36 | HORVU.MOREX.r3.1HG0031420.1.CDS1 ... |
| Poaceae | Lolium multiflorum | 14 | gene-QYE76_000087, gene-QYE76_028678, gene-QYE76_030060 ... |
| Poaceae | Oryza coarctata | 1 | Oco02G011730 |
| Poaceae | Paspalum vaginatum | 12 | gene-BS78_01G159000, gene-BS78_01G509100, gene-BS78_K023600 ... |
| Poaceae | Sporobolus alterniflorus | 58 | Chr01G023790, Chr01G030010, Chr01G030020, Chr02G006560 ... |
| Poaceae | Thinopyrum elongatum | 6 | Tel2E01G536000, Tel5E01G418900, Tel5E01G419000 ... |
| Poaceae | Triticum dicoccoides | 1 | gene_TRIDC7AG060430 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-4890 |
| Solanaceae | Lycium barbarum | 88 | gene-LOC132601412, gene-LOC132601432, gene-LOC132601565 ... |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107016424 |
| Tamaricaceae | Reaumuria soongarica | 22 | MSTRG.2861_chr02_-, STRG.10221_chr06_+, STRG.10559_chr07_- ... |