mhaESC Genome v1.1 + mT2T-Y v1.1
March 1, 2026 · View on GitHub
This page includes the following information:
- Assembled Sequences
- Gene Annotations
- RepeatMasker Data
- LiftOver Chain Files
For old version of readme.md, please check "previous_readme" folder for details.
Assembled Genome
mhaESC v1.1
- mouse.241018.fasta.gz (Assembled genome for mhaESC)
mhaESC v1.1 with mT2T-Y v1.1
- mhaESC_v1.1_with_mT2T-Y_v1.1.251107.fasta.gz (mhaESC v1.1 with mT2T-Y v1.1)
mT2T-Y v1.1
- mT2T-Y.251107.v1.1.0.fasta.gz (Assembled mT2T Y chromosome)
mT2T-X v1.1
- mT2T-X.251107.v1.1.0.fasta.gz (Assembled mT2T X chromosome)
Genome Annotation
mhaESC v1.1 with mT2T-Y v1.1
- mhaESC_v1.1_with_mT2T-Y_v1.1.260129.gff3.gz
- mhaESC.rRNA.gtf (annotation for ribosomal DNA)
mT2T-Y v1.1
UCSC Track Hub for mhaESC v1.1 with mT2T-Y v1.1
RepeatMasker Data
mhaESC v1.1
- mouse.241018.masked.fasta.gz (Hard Masked Genome)
- mouse.241018.soft.masked.fasta.gz (Soft Masked Genome)
- mouse.241018.repeats.gff.gz (Integrated Annotation of Repeats)
- mouse.241018.TE.gff.gz (Annotation of Transposable Elements)
- mouse.241018.TR.gff.gz (Annotation of Tandem Repeats)
mT2T-Y v1.1
- mT2T-Y_v1.1.repeats.gff.gz (Integrated Annotation of Repeats)
LiftOver Chains
mhaESC v1.1 with mT2T-Y v1.1 chains
For GRCm38 (mm10):
- grcm38-mhaesc_v1.1_with_mT2T-Y_v1.1.chain (GRCm38 -> mhaESC v1.1 + mT2T-Y v1.1)
- mhaesc_v1.1_with_mT2T-Y_v1.1-grcm38.chain (mhaESC v1.1 + mT2T-Y v1.1 -> GRCm38)
For GRCm39 (mm39):
- grcm39-mhaesc_v1.1_with_mT2T-Y_v1.1.chain (GRCm39 -> mhaESC v1.1 + mT2T-Y v1.1)
- mhaesc_v1.1_with_mT2T-Y_v1.1-grcm39.chain (mhaESC v1.1 + mT2T-Y v1.1 -> GRCm39)
mhaESC v1.1 chains
For GRCm38 (mm10):
For GRCm39 (mm39):
Version info
This page is last updated on Mar 1, 2026 06:00 (UTC+0).
Contact
Please mail to liqilin★westlake.edu.cn for any related questions.
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