# Photoreceptor scRNA-seq (GSE175929 / PMID:34462505): prom1a prom1b gnat1 gnat2

## Gene positions in the authors' GTF

- prom1a: feature ids ['LL0000022642']; locus ['chr14', 46455962, 46617228]
- prom1b: feature ids ['LL0000022643']; locus ['chr1', 22712889, 22757213]
- gnat1: feature ids ['LL0000011453']; locus ['chr6', 42918933, 42930302]
- gnat2: feature ids ['LL0000011454']; locus ['chr8', 25225590, 25247284]

matrix: 37375 features x 12833 barcodes
assignment: opsin UMI >= 5 and dominant opsin group >= 80% of opsin UMI; bipolar = no opsin UMI and >= 2 cabp5a+vsx1 UMI

## Fraction of cells with >= 1 UMI / mean CP10K

| gene | rod (n=1866) | UV cone (n=126) | blue cone (n=544) | green cone (n=526) | red cone (n=387) | bipolar (cabp5a/vsx1) (n=0) |
|---|---|---|---|---|---|---|
| prom1a | 0.42 / 1.7 | 0.31 / 0.4 | 0.40 / 0.6 | 0.67 / 0.7 | 0.58 / 0.6 | NA |
| prom1b | 0.75 / 6.5 | 0.54 / 1.1 | 0.57 / 1.2 | 0.88 / 1.9 | 0.88 / 2.1 | NA |
| gnat1 | 0.99 / 93.4 | 0.63 / 1.4 | 0.66 / 1.6 | 0.67 / 0.8 | 0.63 / 0.7 | NA |
| gnat2 | 0.99 / 22.5 | 1.00 / 76.6 | 0.99 / 46.5 | 1.00 / 58.9 | 1.00 / 53.6 | NA |

## Mean CP10K ratio rod / mean of cone types (ambient yardstick: gnat2, gnat1)

- prom1a: rod 1.71, cone mean 0.57, rod/cone = 2.97
- prom1b: rod 6.54, cone mean 1.56, rod/cone = 4.19
- gnat1: rod 93.42, cone mean 1.12, rod/cone = 83.28
- gnat2: rod 22.51, cone mean 58.90, rod/cone = 0.38