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Integrating Genetics and Genomics to Advance Soybean Research
SoyBase
SoyBase transitions to NEW site on 10/1/2024
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A newer version of this gene model can be found here:
| Database ID | Annotation Type | Annotation Description | Annotation Source | Match Score | Evidence Code |
|---|---|---|---|---|---|
| AT5G53180 | AT | Annotation by Michelle Graham. TAIR10: polypyrimidine tract-binding protein 2 | chr5:21568393-21571537 REVERSE LENGTH=429 | SoyBase | E_val: 0 | ISS |
| GO:0000381 | GO-bp | Annotation by Michelle Graham. GO Biological Process: regulation of alternative mRNA splicing, via spliceosome | SoyBase | N/A | ISS |
| GO:0006417 | GO-bp | Annotation by Michelle Graham. GO Biological Process: regulation of translation | SoyBase | N/A | ISS |
| GO:0009845 | GO-bp | Annotation by Michelle Graham. GO Biological Process: seed germination | SoyBase | N/A | ISS |
| GO:0009846 | GO-bp | Annotation by Michelle Graham. GO Biological Process: pollen germination | SoyBase | N/A | ISS |
| GO:0043484 | GO-bp | Annotation by Michelle Graham. GO Biological Process: regulation of RNA splicing | SoyBase | N/A | ISS |
| GO:0000932 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: cytoplasmic mRNA processing body | SoyBase | N/A | ISS |
| GO:0005634 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: nucleus | SoyBase | N/A | ISS |
| GO:0005737 | GO-cc | Annotation by Michelle Graham. GO Cellular Compartment: cytoplasm | SoyBase | N/A | ISS |
| GO:0003723 | GO-mf | Annotation by Michelle Graham. GO Molecular Function: RNA binding | SoyBase | N/A | ISS |
| KOG1190 | KOG | Polypyrimidine tract-binding protein | JGI | ISS | |
| PTHR11546 | Panther | HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN | JGI | ISS | |
| PTHR11546:SF16 | Panther | PTB (POLYPYRIMIDINE TRACT-BINDING), RNA BINDING | JGI | ISS | |
| PF00076 | PFAM | RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) | JGI | ISS | |
| UniRef100_B9RIL3 | UniRef | Annotation by Michelle Graham. Most informative UniRef hit: Polypyrimidine tract binding protein, putative n=1 Tax=Ricinus communis RepID=B9RIL3_RICCO | SoyBase | E_val: 0 | ISS |
| UniRef100_I1JYU6 | UniRef | Annotation by Michelle Graham. Best UniRef hit: Uncharacterized protein n=1 Tax=Glycine max RepID=I1JYU6_SOYBN | SoyBase | E_val: 0 | ISS |
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Glyma04g41660 not represented in the dataset |
Glyma04g41660 not represented in the dataset |
| Libault et al. 2010, Plant Phys 152(2):541-552. Complete Transcriptome of the Soybean Root Hair Cell, a Single-Cell Model, and Its Alteration in Response to Bradyrhizobium japonicum Infection |
Severin et al. 2010, BMC Plant Biology 10:160 RNA-Seq Atlas of Glycine max: A guide to the soybean transcriptome |
| Paralog | Evidence | Comments |
|---|---|---|
| Glyma06g13135 | IGC | Paralogs in soybean determined by Steven Cannon using BLAST, DAGChainer, PAML, and selection of gene pairs from synteny blocks with median Ks values of less than 0.3. |
| Corresponding Name | Annotation Version | Evidence | Comments |
|---|
| Schmutz et al. 2010 Genome sequence of the palaeopolyploid soybean Nature 2010, 463:178-183 |
>Glyma04g41660.2 sequence type=transcript gene model=Glyma04g41660 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high TAAATATGTGGTTACGATCCAGCGTGTAAAGGCCTTGTCTTTGCCCGCGGTGCTCCTGTTGATAACGGAGAAGCTCCTTCTTTATCGTTTCCCTTTTTTCGAGAACCCCAATCCCGTTAACTCGTAAAAAAAAAAAAAAACCAGAGCCCTTCTCGTCCTCTCAATTCTCTCAGTCCAAGGGGCTGCAAATTTTCTGGTTCTTTTCGACAGATTTTGAGTCATTGTTTGAAATGGCATCGGTATCTAGTCAGCCACAGTTCCGTTACACTCAGCCGCCGTCAAAGGTGCTTCATTTGAGGAACTTGCCGTGGGAGTGCACAGAGGAGGAACTGATTGAGCTTGGGAAGCCGTTTGGCAAAGTTGTTAACACAAAATGCAATGTTGGGGCAAATAGAAATCAAGCTTTTATTGAATTTGCAGATTTGAATCAAGCCATTGCAATGATATCATACTATGCCTCATCATCAGAGCCTGCTCAAGTACGAGGGAAAACTGTATACCTACAATATTCAAATAGGCAAGAAATAGTGAATAACAAAACTGCTGCAGATGTTCCTGGGAATGTATTGTTGGTAACGATTGAGGGTGCAGATGCACGTCTTGTCAGCATTGATGTCTTGCACTTGCAGGCCCATGTCAAGACAATATCTTCAATGGCAGCTTAGTGCTTTGGGAGAAATAGCGCTTGTTTTTTCAGCCTTTGGATTTGTGCATAAGATTACTACTTTCGAGAAGACAGCAGGATTTCAGGCACTGGTGCAATTCTCAGATGCAGAGACTGCCACCTCTGCGAAGGATGCTTTGGATGGAAGAAGCATACCTAGGTATCTGCTGCCTGAGCATATGGGACCATGTACCCTTAGGATCACTTATTCTGGACATTCAGATTTAAGTGTAAAGTTTCAAAGCCACAGGAGCAGAGACTATACTAATCCTTACCTTCCTGTTGCTCCATCAGCTGTGGAGGGAAGTGGACAGGCTATGGTTGGCTTGGATGGGAAAAGACTGGAGGCTGAGAGTAATGTTCTCCTTGCATCTATTGAAAACATGCAATATGCCGTAACACTGGATGTCTTACACATGGTTTTCTCTGCTTTTGGTCCTGTCCAAAAAATTGCAATGTTCGATAAGAATGGTGGTTTGCAGGCTCTGATTCAATTTCCAGATACTCAGACAGCTGTTGTGGCCAAGGAGGCCTTGGAAGGACATTGCATATATGATGGAGGTTTTTGCAAGCTTCACATTTCATATTCACGACATACTGATCTAAGTATAAAGGTCAATAATGATAGGAGCAGAGACTATACCATTCCTAATACCCCTGCTGTGAACGTCCAACCCTCAATTTTAGGGCAACAATCTGTTCCCATGATGGGCCCTCCACAACAACCATACAATGGGTCTCAGGCTGGATGGGGGACAGCTCCACCAGCAACAACGGTTCAGTCTATGCCAATGCAGATGCACAATAATGTTTACATGCCATCTGGAACTATGCCACAACAAATGGCCCCTGGAATGCAATTTCCAAGTTACAACACAGCACAACCTACAACAACATTGCCCTCATATCGATCTGATCGTACTCAATAGCATGCATCTCCTTTGTCTCAAATAGATCTCTACATTGGTTAGCGCTGGCTTATGCAGAATTGAGGACTGTCATTTAAATTAGGGTTCCCCTTCTCATCTTTCCCTTCTGTCATTTTTCAGATGTTGAATATTGAACGGGTCTGTAAGCTATTGGTCAACAACTTTTGAGTGTCTTAACTATGAAACAAAATATTCTGTTTTGGTGTATTTGTGTTTGAGAATATGATGTAATCCAGTATAATCGATTTTGTATGGATGACGAAGTAATATCATGTTATTACCAGCATCGTAGCTTCGGGTTGTGAAGCCATATGGGTTAATTTGTTGACTCTTATAAAATAAATAAATATCCCGATAACATAGGGGTGGGCAATATGACTCCTGCTTCTATTGTAACAAAAGAGTACTATTTTAT
>Glyma04g41660.1 sequence type=CDS gene model=Glyma04g41660 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGGCATCGGTATCTAGTCAGCCACAGTTCCGTTACACTCAGCCGCCGTCAAAGGTGCTTCATTTGAGGAACTTGCCGTGGGAGTGCACAGAGGAGGAACTGATTGAGCTTGGGAAGCCGTTTGGCAAAGTTGTTAACACAAAATGCAATGTTGGGGCAAATAGAAATCAAGCTTTTATTGAATTTGCAGATTTGAATCAAGCCATTGCAATGATATCATACTATGCCTCATCATCAGAGCCTGCTCAAGTACGAGGGAAAACTGTATACCTACAATATTCAAATAGGCAAGAAATAGTGAATAACAAAACTGCTGCAGATGTTCCTGGGAATGTATTGTTGGTAACGATTGAGGGTGCAGATGCACGTCTTGTCAGCATTGATGTCTTGCACTTGGTTTTTTCAGCCTTTGGATTTGTGCATAAGATTACTACTTTCGAGAAGACAGCAGGATTTCAGGCACTGGTGCAATTCTCAGATGCAGAGACTGCCACCTCTGCGAAGGATGCTTTGGATGGAAGAAGCATACCTAGGTATCTGCTGCCTGAGCATATGGGACCATGTACCCTTAGGATCACTTATTCTGGACATTCAGATTTAAGTGTAAAGTTTCAAAGCCACAGGAGCAGAGACTATACTAATCCTTACCTTCCTGTTGCTCCATCAGCTGTGGAGGGAAGTGGACAGGCTATGGTTGGCTTGGATGGGAAAAGACTGGAGGCTGAGAGTAATGTTCTCCTTGCATCTATTGAAAACATGCAATATGCCGTAACACTGGATGTCTTACACATGGTTTTCTCTGCTTTTGGTCCTGTCCAAAAAATTGCAATGTTCGATAAGAATGGTGGTTTGCAGGCTCTGATTCAATTTCCAGATACTCAGACAGCTGTTGTGGCCAAGGAGGCCTTGGAAGGACATTGCATATATGATGGAGGTTTTTGCAAGCTTCACATTTCATATTCACGACATACTGATCTAAGTATAAAGGTCAATAATGATAGGAGCAGAGACTATACCATTCCTAATACCCCTGCTGTGAACGTCCAACCCTCAATTTTAGGGCAACAATCTGTTCCCATGATGGGCCCTCCACAACAACCATACAATGGGTCTCAGGCTGGATGGGGGACAGCTCCACCAGCAACAACGGTTCAGTCTATGCCAATGCAGATGCACAATAATGTTTACATGCCATCTGGAACTATGCCACAACAAATGGCCCCTGGAATGCAATTTCCAAGTTACAACACAGCACAACCTACAACAACATTGCCCTCATATCGATCTGATCGTACTCAATAG >Glyma04g41660.2 sequence type=CDS gene model=Glyma04g41660 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high ATGCACGTCTTGTCAGCATTGATGTCTTGCACTTGCAGGCCCATGTCAAGACAATATCTTCAATGGCAGCTTAGTGCTTTGGGAGAAATAGCGCTTGTTTTTTCAGCCTTTGGATTTGTGCATAAGATTACTACTTTCGAGAAGACAGCAGGATTTCAGGCACTGGTGCAATTCTCAGATGCAGAGACTGCCACCTCTGCGAAGGATGCTTTGGATGGAAGAAGCATACCTAGGTATCTGCTGCCTGAGCATATGGGACCATGTACCCTTAGGATCACTTATTCTGGACATTCAGATTTAAGTGTAAAGTTTCAAAGCCACAGGAGCAGAGACTATACTAATCCTTACCTTCCTGTTGCTCCATCAGCTGTGGAGGGAAGTGGACAGGCTATGGTTGGCTTGGATGGGAAAAGACTGGAGGCTGAGAGTAATGTTCTCCTTGCATCTATTGAAAACATGCAATATGCCGTAACACTGGATGTCTTACACATGGTTTTCTCTGCTTTTGGTCCTGTCCAAAAAATTGCAATGTTCGATAAGAATGGTGGTTTGCAGGCTCTGATTCAATTTCCAGATACTCAGACAGCTGTTGTGGCCAAGGAGGCCTTGGAAGGACATTGCATATATGATGGAGGTTTTTGCAAGCTTCACATTTCATATTCACGACATACTGATCTAAGTATAAAGGTCAATAATGATAGGAGCAGAGACTATACCATTCCTAATACCCCTGCTGTGAACGTCCAACCCTCAATTTTAGGGCAACAATCTGTTCCCATGATGGGCCCTCCACAACAACCATACAATGGGTCTCAGGCTGGATGGGGGACAGCTCCACCAGCAACAACGGTTCAGTCTATGCCAATGCAGATGCACAATAATGTTTACATGCCATCTGGAACTATGCCACAACAAATGGCCCCTGGAATGCAATTTCCAAGTTACAACACAGCACAACCTACAACAACATTGCCCTCATATCGATCTGATCGTACTCAATAG
>Glyma04g41660.1 sequence type=predicted peptide gene model=Glyma04g41660 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MASVSSQPQFRYTQPPSKVLHLRNLPWECTEEELIELGKPFGKVVNTKCNVGANRNQAFIEFADLNQAIAMISYYASSSEPAQVRGKTVYLQYSNRQEIVNNKTAADVPGNVLLVTIEGADARLVSIDVLHLVFSAFGFVHKITTFEKTAGFQALVQFSDAETATSAKDALDGRSIPRYLLPEHMGPCTLRITYSGHSDLSVKFQSHRSRDYTNPYLPVAPSAVEGSGQAMVGLDGKRLEAESNVLLASIENMQYAVTLDVLHMVFSAFGPVQKIAMFDKNGGLQALIQFPDTQTAVVAKEALEGHCIYDGGFCKLHISYSRHTDLSIKVNNDRSRDYTIPNTPAVNVQPSILGQQSVPMMGPPQQPYNGSQAGWGTAPPATTVQSMPMQMHNNVYMPSGTMPQQMAPGMQFPSYNTAQPTTTLPSYRSDRTQ* >Glyma04g41660.2 sequence type=predicted peptide gene model=Glyma04g41660 sequence assembly version=Glyma 1.0 annotation version=1.1 JGI Gene Call confidence=high MHVLSALMSCTCRPMSRQYLQWQLSALGEIALVFSAFGFVHKITTFEKTAGFQALVQFSDAETATSAKDALDGRSIPRYLLPEHMGPCTLRITYSGHSDLSVKFQSHRSRDYTNPYLPVAPSAVEGSGQAMVGLDGKRLEAESNVLLASIENMQYAVTLDVLHMVFSAFGPVQKIAMFDKNGGLQALIQFPDTQTAVVAKEALEGHCIYDGGFCKLHISYSRHTDLSIKVNNDRSRDYTIPNTPAVNVQPSILGQQSVPMMGPPQQPYNGSQAGWGTAPPATTVQSMPMQMHNNVYMPSGTMPQQMAPGMQFPSYNTAQPTTTLPSYRSDRTQ*
| Funded by the USDA-ARS. Developed by the USDA-ARS SoyBase and Legume Clade Database group at the Iowa State University, Ames, IA | ||
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