# Pair analysis: guca1c / guca1d (run 2026-09-28) ## 0. ZFIN gene symbols and aliases for the GCAP family (ZFIN aliases.txt) - guca1aa (ZDB-GENE-011128-5; guanylate cyclase activator 1Aa): aliases gcap1, guca1a - guca1ab.1 (ZDB-GENE-040426-1577; guanylate cyclase activator 1Ab.1): aliases gcap5, guca1e, zgc:66243 - guca1ab.2 (ZDB-GENE-091204-414; guanylate cyclase activator 1Ab.2): aliases guca1e.2, si:ch211-103a14.5 - guca1b (ZDB-GENE-011128-6; guanylate cyclase activator 1B): aliases gcap2 - guca1c (ZDB-GENE-030829-1; guanylate cyclase activator 1C): aliases gcap3 - guca1d (ZDB-GENE-040724-231; guanylate cyclase activator 1d): aliases gcap4, si:rp71-1p14.1 - guca1g (ZDB-GENE-050120-1; guanylate cyclase activator 1g): aliases gcap7 ## 1. Sequence lengths and pairwise identities length guca1c: 188 aa length guca1d: 185 aa length GUCA1C: 209 aa length GUCA1A: 201 aa length GUCA1B: 200 aa length gar_GUCA1C: 189 aa length medaka_ortholog_of_guca1c: 189 aa length medaka_ortholog_of_guca1d: 189 aa identity guca1c vs guca1d: 75.5% over 188 columns identity guca1c vs GUCA1C: 40.7% over 209 columns identity guca1c vs GUCA1A: 41.3% over 201 columns identity guca1c vs GUCA1B: 34.5% over 203 columns identity guca1c vs gar_GUCA1C: 68.9% over 190 columns identity guca1c vs medaka_ortholog_of_guca1c: 85.2% over 189 columns identity guca1c vs medaka_ortholog_of_guca1d: 78.3% over 189 columns identity guca1d vs GUCA1C: 42.6% over 209 columns identity guca1d vs GUCA1A: 45.8% over 201 columns identity guca1d vs GUCA1B: 36.0% over 203 columns identity guca1d vs gar_GUCA1C: 71.4% over 189 columns identity guca1d vs medaka_ortholog_of_guca1c: 77.8% over 189 columns identity guca1d vs medaka_ortholog_of_guca1d: 84.1% over 189 columns identity GUCA1C vs GUCA1A: 44.9% over 214 columns identity GUCA1C vs GUCA1B: 32.6% over 224 columns identity GUCA1C vs gar_GUCA1C: 46.4% over 211 columns identity GUCA1C vs medaka_ortholog_of_guca1c: 41.6% over 209 columns identity GUCA1C vs medaka_ortholog_of_guca1d: 41.6% over 209 columns identity GUCA1A vs GUCA1B: 41.0% over 212 columns identity GUCA1A vs gar_GUCA1C: 45.3% over 201 columns identity GUCA1A vs medaka_ortholog_of_guca1c: 43.8% over 201 columns identity GUCA1A vs medaka_ortholog_of_guca1d: 43.5% over 207 columns identity GUCA1B vs gar_GUCA1C: 37.0% over 208 columns identity GUCA1B vs medaka_ortholog_of_guca1c: 37.6% over 205 columns identity GUCA1B vs medaka_ortholog_of_guca1d: 36.8% over 204 columns identity gar_GUCA1C vs medaka_ortholog_of_guca1c: 71.7% over 191 columns identity gar_GUCA1C vs medaka_ortholog_of_guca1d: 70.7% over 191 columns identity medaka_ortholog_of_guca1c vs medaka_ortholog_of_guca1d: 81.0% over 189 columns ## 1b. Zebrafish copies vs each isoform of the human reference identity guca1c vs O95843 (209 aa): 40.7% over 209 columns; N-terminal 60 aa: 39.7% identity guca1d vs O95843 (209 aa): 42.6% over 209 columns; N-terminal 60 aa: 46.0% identity guca1c vs O95843-2 (196 aa): 34.1% over 208 columns; N-terminal 60 aa: 39.7% identity guca1d vs O95843-2 (196 aa): 39.2% over 204 columns; N-terminal 60 aa: 46.0% ## 2. Human GUCA1C landmarks aligned in each protein human GUCA1C (O95843) Ca2+-binding positions: [65, 67, 69, 76, 101, 103, 105, 107, 112, 143, 145, 147, 149, 154]; lipidation: [2] | position (human) | human | guca1c | guca1d | gar_GUCA1C | medaka_ortholog_of_guca1c | medaka_ortholog_of_guca1d | |---|---|---|---|---|---|---| | 2 | G | G | G | G | G | G | | 65 | D | D | D | D | D | D | | 67 | N | D | D | N | D | D | | 69 | D | D | D | D | D | D | | 76 | E | E | E | E | E | E | | 101 | D | D | D | D | D | D | | 103 | D | D | D | D | D | D | | 105 | N | N | N | N | N | N | | 107 | S | K | K | K | K | K | | 112 | E | E | E | E | E | E | | 143 | D | D | D | D | D | D | | 145 | N | N | N | N | K | K | | 147 | D | E | E | D | E | E | | 149 | E | E | E | E | E | E | | 154 | E | E | E | E | E | E | EF-hand 1 [15-50] human: PTQETHVWYRTFMMEYPSGLQTLHEFKTLLGLQGLN guca1c: LAEDMHYWYNKFMRESPSGLITLFELKNMLEMQGMT identical 17/36 guca1d: LAEDMHHWYNKFMRESPSGLITLFELKSILGLQGMN identical 20/36 gar_GUCA1C: ---DMHHWYNKFMRESPSGLITLYELKAILGLQRVT identical 18/36 medaka_ortholog_of_guca1c: LEEDMHHWYTKFMRESPSGLITLFELKTMLEMNGMT identical 17/36 medaka_ortholog_of_guca1d: LAEDMHHWYNKFMRESPSGLITLFELKAILNLRGIT identical 17/36 EF-hand 2 [52-87] human: KANKHIDQVYNTFDTNKDGFVDFLEFIAAVNLIMQE guca1c: EASSYVDQVFFTFDMDGDGYIDFVEYIAAVSLLLKG identical 17/36 guca1d: DANSYVDQVFCTFDMDRDGYIDFVEYIAAISLMLKG identical 17/36 gar_GUCA1C: EANSYIDQVFHTFDMNGDGFIDFVEYIAAISLVLKG identical 20/36 medaka_ortholog_of_guca1c: EASSYVDQVFFTFDMDGDGYIDFVEYIAAISLLLKG identical 16/36 medaka_ortholog_of_guca1d: NANGYVEQVFFTFDMDGDGYIDFVEYIAAISLLLKG identical 16/36 EF-hand 3 [88-123] human: KMEQKLKWYFKLYDADGNGSIDKNELLDMFMAVQAL guca1c: EINQKLKWYFKLFDQDGNGKIDRDEMETIFKAIQDI identical 20/36 guca1d: EINQKLKWYFKLFDQDGNGKIDKDELETIFTAIQDI identical 22/36 gar_GUCA1C: EINQKLKWYFKLYDADGNGKIDREELQTIFKAVQDI identical 24/36 medaka_ortholog_of_guca1c: EINQKLKWYFKLFDQDGNGKIDKDELETIFKAIQDI identical 22/36 medaka_ortholog_of_guca1d: EINQKLKWYFKLFDQDGNGKIDKDELETIFTAIQDI identical 22/36 EF-hand 4 [130-165] human: SPEEFINLVFHKIDINNDGELTLEEFINGMAKDQDL guca1c: PPDDIVSLIYERIDVNNEGELTLEEFITGAKEHPDI identical 17/36 guca1d: VPEEIVALIFEKIDVNGEGELTLEEFIEGAKEHPEI identical 19/36 gar_GUCA1C: SPEEITTLIFDTIDVNGDGELTLEEFIAGAKEHPVI identical 20/36 medaka_ortholog_of_guca1c: PPEEIVTLIYEKIDVKGEGELTLEEFISGAREHPDI identical 18/36 medaka_ortholog_of_guca1d: DPEEIVALIFEKIDVKGEGELTLEEFIEGAKEHPDI identical 19/36 N-terminal myristoylation motif (M-G at 1-2) in guca1c: True (MGAHASNL...) N-terminal myristoylation motif (M-G at 1-2) in guca1d: True (MGNNHASL...) N-terminal myristoylation motif (M-G at 1-2) in gar_GUCA1C: False (SRMGAYGS...) N-terminal myristoylation motif (M-G at 1-2) in medaka_ortholog_of_guca1c: True (MGSHSSSL...) N-terminal myristoylation motif (M-G at 1-2) in medaka_ortholog_of_guca1d: True (MGNHGSNL...) N-terminal myristoylation motif (M-G at 1-2) in GUCA1C: True (MGNGKSIA...) guca1c vs guca1d: 46 differing alignment columns out of 188 ## 3. Tajima-style relative-rate test (outgroup = gar) gar positions aligned in both copies: 185 changes unique to guca1c (m1): 16; unique to guca1d (m2): 12; chi2 (1 df) = 0.57 (not significant at 0.05) ## 4. Whole-embryo time course, E-ERAD-475 (TPM, median of replicates) | stage | guca1c | guca1d | |---|---|---| | zygote | 0 | 0 | | cleavage 2-cell | 0 | 0 | | blastula 128-cell | 0 | 0 | | blastula 1k-cell | 0 | 0 | | blastula dome | 0 | 0 | | gastrula 50%-epiboly | 0 | 0 | | gastrula shield | 0 | 0 | | gastrula 75%-epiboly | 0 | 0 | | segmentation 1-4 somites | 0 | 0 | | segmentation 14-19 somites | 0 | 0 | | segmentation 20-25 somites | 0 | 0 | | pharyngula prim-5 | 0 | 0 | | pharyngula prim-15 | 0 | 0 | | pharyngula prim-25 | 0 | 0 | | hatching long-pec | 0 | 0 | | larval protruding mouth | 3 | 5 | | larval day 4 | 3 | 8 | | larval day 5 | 3 | 6 | ## 5. Bgee expressed calls per anatomical entity (expression score 0-100; only 'expressed' calls are returned) ### guca1c: 6 calls - white matter: 80.8 (gold; in situ hybridization) - brain white matter: 79.2 (gold; in situ hybridization) - cranial nerve II: 78.6 (gold; in situ hybridization) - outer nuclear layer of retina: 66.7 (gold; in situ hybridization) - photoreceptor layer of retina: 61.9 (gold; in situ hybridization) - larva: 49.6 (gold; Affymetrix,RNA-Seq) ### guca1d: 5 calls - retina: 86.8 (gold; RNA-Seq) - granulocyte: 62.0 (gold; RNA-Seq) - head kidney: 54.7 (silver; RNA-Seq) - larva: 43.0 (gold; RNA-Seq) - bone element: 24.4 (silver; RNA-Seq) ### gar_GUCA1C (spotted gar): 4 calls - camera-type eye: 97.7 (gold; RNA-Seq) - zone of skin: 26.7 (gold; RNA-Seq) - brain: 21.8 (silver; RNA-Seq) - larva: 20.2 (gold; RNA-Seq) RNA-Seq-supported entities: guca1c only: [] RNA-Seq-supported entities: guca1d only: ['bone element', 'granulocyte', 'head kidney', 'retina'] RNA-Seq-supported entities: both: ['larva'] ## 6. Local synteny between the two copies (Ensembl REST) guca1c: chr15:2884711-2903475 guca1d: chr21:22906479-22910530 guca1c +/- 1.5 Mb: 76 other protein-coding genes (0 homology queries failed); 18 have a teleost-level (Osteoglossocephalai/Clupeocephala) zebrafish paralogue; 2 such paralogue pairs have their partner within 1.5 Mb of guca1d: - lpar6a -> lpar6b (chr21:22985078) - tgfb1a -> tgfb1b (chr21:21621042) Of the teleost-level paralogue pairs, 4 have their partner anywhere on chr21 (the chromosome of guca1d, 962 protein-coding genes): - cldna -> cldnb (chr21:25765734) - si:ch211-235m3.5 -> bicdl2l (chr21:25688388) - lpar6a -> lpar6b (chr21:22985078) - tgfb1a -> tgfb1b (chr21:21621042) guca1d +/- 1.5 Mb: 94 other protein-coding genes (0 homology queries failed); 35 have a teleost-level (Osteoglossocephalai/Clupeocephala) zebrafish paralogue; 2 such paralogue pairs have their partner within 1.5 Mb of guca1c: - tgfb1b -> tgfb1a (chr15:2776506) - lpar6b -> lpar6a (chr15:3656212) Of the teleost-level paralogue pairs, 57 have their partner anywhere on chr15 (the chromosome of guca1c, 953 protein-coding genes): - nectin3b -> ENSDARG00000103638 (chr15:14861335) - diablob -> diabloa (chr15:14854666) - tgfb1b -> tgfb1a (chr15:2776506) - or62a2 -> or62c3 (chr15:5162274) - or62a2 -> or62c4 (chr15:5175593) - or62a2 -> or62c5 (chr15:5250954) - or62a2 -> or62c6 (chr15:5189408) - or62a2 -> or62c1 (chr15:5167690) - or62a2 -> or62c2 (chr15:5182854) - or62b2 -> or62c3 (chr15:5162274) - or62b2 -> or62c4 (chr15:5175593) - or62b2 -> or62c5 (chr15:5250954) - or62b2 -> or62c6 (chr15:5189408) - or62b2 -> or62c1 (chr15:5167690) - or62b2 -> or62c2 (chr15:5182854) - or62b1 -> or62c3 (chr15:5162274) - or62b1 -> or62c4 (chr15:5175593) - or62b1 -> or62c5 (chr15:5250954) - or62b1 -> or62c6 (chr15:5189408) - or62b1 -> or62c1 (chr15:5167690) - or62b1 -> or62c2 (chr15:5182854) - or62b4 -> or62c3 (chr15:5162274) - or62b4 -> or62c4 (chr15:5175593) - or62b4 -> or62c5 (chr15:5250954) - or62b4 -> or62c6 (chr15:5189408) - or62b4 -> or62c1 (chr15:5167690) - or62b4 -> or62c2 (chr15:5182854) - or62b3 -> or62c3 (chr15:5162274) - or62b3 -> or62c4 (chr15:5175593) - or62b3 -> or62c5 (chr15:5250954) - or62b3 -> or62c6 (chr15:5189408) - or62b3 -> or62c1 (chr15:5167690) - or62b3 -> or62c2 (chr15:5182854) - or62b5 -> or62c3 (chr15:5162274) - or62b5 -> or62c4 (chr15:5175593) - or62b5 -> or62c5 (chr15:5250954) - or62b5 -> or62c6 (chr15:5189408) - or62b5 -> or62c1 (chr15:5167690) - or62b5 -> or62c2 (chr15:5182854) - or62a1 -> or62c3 (chr15:5162274) - or62a1 -> or62c4 (chr15:5175593) - or62a1 -> or62c5 (chr15:5250954) - or62a1 -> or62c6 (chr15:5189408) - or62a1 -> or62c1 (chr15:5167690) - or62a1 -> or62c2 (chr15:5182854) - or62a3 -> or62c3 (chr15:5162274) - or62a3 -> or62c4 (chr15:5175593) - or62a3 -> or62c5 (chr15:5250954) - or62a3 -> or62c6 (chr15:5189408) - or62a3 -> or62c1 (chr15:5167690) - or62a3 -> or62c2 (chr15:5182854) - lpar6b -> lpar6a (chr15:3656212) - zbtb16a -> zbtb16b (chr15:18253542) - ncam1a -> ncam1b (chr15:18368809) - defbl2 -> defbl3 (chr15:5011080) - slc35f2 -> slc35f2l (chr15:25156121) - cadm1a -> cadm1b (chr15:18863872)