dme-mir-12

Changes

This miRNA belongs to the dme-mir-283, dme-mir-304, dme-mir-12, and dme-mir-12-as cluster.
The reported D. yakuba ortholog reported in the 12-way alignment is wrong as shown below
A block of the 12-way alignment is missing. This is attributed to a multiz defect and does not reflect genuine genomic gaps.

The D. yakuba ortholog is partially missing because there is a large gap at position chrX:9589875-9590127. Searching the trace data via LASTZ with the D. melanogaster sequence as the query, the true ortholog is recoverable.

>dme-mir-12-dm3
AAGGAGCAGCGTCTGTACGGTTGAGTATTACATCAGGTACTGGTGTGCCTTAAATCCAACAACCAGTACTTATGTCATACTACGCCGTGCACGGATCGCACTAA
>gnl|ti|371645083:614-718
AAGGAGCAGCGTCTGTACGGTTGAGTATTACATCAGGTACTGGTGTGCCTTAAATCCAACAACCAGTACTTATGTCATACTACGCCGTGCACGGATCGCACTAA

Corrected alignment

dme-mir-12

Species	Coordinate	Alignment
dm3	chrX:15403491-15403594 +	AA-----------------GG---------AG--CAGCGTCTGTACGGTTGAGTATTACATCAGGTACTGGTGTGCCTTAAATCCAACAACCAGTACTTATGTCATACTACGCCGTGCACGGATCGCACTAA
droSim1	chrX_random:4024315-4024418 +	AT-----------------GG---------AG--CAGCGTCTGTACGGTTGAGTATTACATCAGGTACTGGTGTGCCTGAAATCCAACAACCAGTACTTGTGTCATACTACGCCGTGCACGGATCGCACTAA
droSec1	super_73:137914-138017 +	AT-----------------GG---------AG--CAGCGTCTGTACGGTTGAGTATTACATCAGGTACTGGTGTGCCTGAAATCCAACAACCAGTACTTGTGTCATACTACGCCGTGCACGGATCGCACTAA
droYak2	gnl\|ti\|371645083:614-718 +	AA-----------------GG---------AG--CAGCGTCTGTACGGTTGAGTATTACATCAGGTACTGGTGTGCCTTAAATCCAACAACCAGTACTTATGTCATACTACGCCGTGCACGGATCGCACTAA
droEre2	scaffold_4690:11630938-11631041 -	AA-----------------GG---------AG--CAGCGTCTGTACGGTTGAGTATTACATCAGGTACTGGTGTGCCTTAAAACCAACAACCAGTACTTATGTCATACTACGCCGTGCACGGATCGCACTAA
droAna3	scaffold_12929:2898571-2898667 -	------------------------------------GCGTCTGTACGGCTGAGTATTACATCAGGTACTGGTGTGCCTTTAATCCAACAACCAGTACTTATGTCATACTACGCCGTGCACCGATCGCACTAA
dp4	chrXL_group1a:977995-978098 +	AT-----------------CC---------AG--CAGCGTCTGTACGGCTGAGTATTACATCAGGTACTGGTGTGCTTTAAATCCAACAACCAGTACTTATGTTATACTACGCCGTGCACTGATCGCACTAA
droPer1	super_26:1092636-1092739 +	AT-----------------CC---------AG--CAGCGTCTGTACGGCTGAGTATTACATCAGGTACTGGTGTGCTTTAAATCCAACAACCAGTACTTATGTTATACTACGCCGTGCACTGATCGCACTAA
droWil1	scaffold_180702:1592742-1592841 -	-------------------------------G--CAGCGCCTGTACGGTTGAGTATTACATCAGGTACTGGTGTGCCTTTAATCCAACAACCAGTACTTATGTCATACTACGCCGTGCACGGATCGCACTAA
droVir3	scaffold_12970:2049296-2049416 +	AACAGCCGCATCAGCATCCGC---------AT--CAGCGTCTGTACGGTTGAGTATTACATCAGGTACTGGTGTGCCATTTAACTAACAACCAGTACTTATGTCATACTACGCCGTGCAGTGGGCGCACTAA
droMoj3	scaffold_6359:3259767-3259875 +	A------------GCATCAGC---------AT--CAGCGTCTGTACGGTTGAGTATTACATCAGGTACTGGTGTGCCAATTAACTAACAACCAGTACTTATGTCATACTACGCCGTGCAGTGGGCGCACTAA
droGri2	scaffold_14853:6951707-6951816 -	AA-----------------GCAGCATCACA-----AGCGTCTGTACGGTTGAGTATTACATCAGGTACTGGTGTGCCATTTAACCAACAACCAGTACTTATGTCATACTACGCCGTGCAGTGGGCGCACTAA