Complex locus A1BG and ZNF497: Difference between revisions

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There inverses on the negative strand in the positive direction of 31 H boxes: 3'-ATGACA-5' at 2412, 3'-ACTACA-5' at 2428, 3'-AGGACA-5' at 2460, 3'-ATTATA-5' at 2548, 3'-ACCACA-5' at 2600, 3'-AGGAAA-5' at 2623, 3'-AATAGA-5' at 2627, 3'-ACCACA-5' at 2634, 3'-AACAGA-5' at 2652, 3'-AGCAAA-5' at 2706, 3'-AGGAAA-5' at 2831, 3'-AACACA-5' at 2835, 3'-ATGACA-5' at 2843, 3'-AGAACA-5' at 3094, 3'-AACACA-5' at 3096, 3'-AGGACA-5' at 3131, 3'-ACCAAA-5' at 3175, 3'-AACAGA-5' at 3179, 3'-AGCAGA-5' at 3214, 3'-AGTAGA-5' at 3416, 3'-AATAAA-5' at 3427, 3'-ACCAGA-5' at 3548, 3'-ATGACA-5' at 3569, 3'-AGGAGA-5' at 3650, 3'-AGCACA-5' at 3740, 3'-ACCACA-5' at 3859, 3'-AAAAGA-5' at 3929, 3'-AGAACA-5' at 4068, 3'-ATCATA-5' at 4149, and 3'-ATTATA-5' at 4166.
There inverses on the negative strand in the positive direction of 31 H boxes: 3'-ATGACA-5' at 2412, 3'-ACTACA-5' at 2428, 3'-AGGACA-5' at 2460, 3'-ATTATA-5' at 2548, 3'-ACCACA-5' at 2600, 3'-AGGAAA-5' at 2623, 3'-AATAGA-5' at 2627, 3'-ACCACA-5' at 2634, 3'-AACAGA-5' at 2652, 3'-AGCAAA-5' at 2706, 3'-AGGAAA-5' at 2831, 3'-AACACA-5' at 2835, 3'-ATGACA-5' at 2843, 3'-AGAACA-5' at 3094, 3'-AACACA-5' at 3096, 3'-AGGACA-5' at 3131, 3'-ACCAAA-5' at 3175, 3'-AACAGA-5' at 3179, 3'-AGCAGA-5' at 3214, 3'-AGTAGA-5' at 3416, 3'-AATAAA-5' at 3427, 3'-ACCAGA-5' at 3548, 3'-ATGACA-5' at 3569, 3'-AGGAGA-5' at 3650, 3'-AGCACA-5' at 3740, 3'-ACCACA-5' at 3859, 3'-AAAAGA-5' at 3929, 3'-AGAACA-5' at 4068, 3'-ATCATA-5' at 4149, and 3'-ATTATA-5' at 4166.
==HNF6s==
==HY boxes==
==Initiator elements==
==Metal responsive elements==
==STAT5s==
==TATA boxes==
==W boxes==


==See also==
==See also==

Revision as of 00:20, 17 January 2020

ZSCAN22

  1. Gene ID: 342945 is ZSCAN22 zinc finger and SCAN domain containing 22.[1] ZSCAN22 is transcribed in the negative direction from LOC100887072.[1]
  2. Gene ID: 102465484 is MIR6806.[2] MIR6806 is transcribed in the negative direction from LOC105372480.[2]

Alpha-1-B glycoprotein

  1. Gene ID: 1 is Alpha-1-B glycoprotein, a 54.3 kDa protein in humans that is encoded by the A1BG gene.[3] A1BG is transcribed in the positive direction from ZNF497.[3] The protein encoded by this gene is a plasma glycoprotein of unknown function. The protein shows sequence similarity to the variable regions of some immunoglobulin supergene family member proteins. Patients who have pancreatic ductal adenocarcinoma show an overexpression of A1BG in pancreatic juice.[4] The gene contains 20 distinct introns.[5] Transcription produces 15 different mRNAs, 10 alternatively spliced variants and 5 unspliced forms.[5] There are 4 probable alternative promoters, 4 non overlapping alternative last exons and 7 validated alternative polyadenylation sites.[5] The mRNAs appear to differ by truncation of the 5' end, truncation of the 3' end, presence or absence of 4 cassette exons, overlapping exons with different boundaries, splicing versus retention of 3 introns.[5]
  2. Gene ID: 503538 is A1BG-AS1 A1BG antisense RNA 1.[6] A1BG-AS1 is transcribed in the negative direction from ZSCAN22.[6]

ZNF497

  1. Gene ID: 503538 is A1BG-AS1 A1BG antisense RNA 1.[6] A1BG-AS1 is transcribed in the negative direction from ZSCAN22.[6]
  2. Gene ID: 162968 is ZNF497 zinc finger protein 497.[7] ZNF497 is transcribed in the positive direction from RNA5SP473.[7]
  3. Gene ID: 100419840 is LOC100419840 zinc finger protein 446 pseudogene.[8] LOC100419840 may be transcribed in the positive direction from LOC105372483.[8]
  4. Gene ID: 105372483 is LOC105372483 uncharacterized LOC105372483 ncRNA.[9] LOC105372483 is transcribed in the negative direction from LOC100419840.[9]
  5. Gene ID: 106479017 is RNA5SP473 RNA, 5S ribosomal pseudogene 473.[10] RNA5SP473 may be transcribed in the negative direction from ZNF497.[10]

AGC boxes

An inverse AGC box occurs negative strand, negative direction, 3'-CCGCCGA-5' at 1754 nts from ZSCAN22 toward A1BG in the distal promoter with its complement on the positive strand, negative direction.

ATA boxes

C boxes

D boxes

CArG boxes

CGCG boxes

CRE boxes

E2 boxes

Enhancer boxes

B recognition elements

GATA boxes

GC boxes

H boxes

Core promoters

Between ZSCAN22 and A1BG: There is one inverse and its complement 3'-AGGAGA-5' at 4428 nts.

Between ZNF497 and A1BG: There is an inverse and its complement 3'-AGGACA-5' at 4252. There is five after the TSS: 3'-AGAGAA-5' at 4387, 3'-AGTACA-5' at 4365, 3'-ACCAGA-5' at 4380, 3'-AAGAGA-5' at 4386, 3'-ACGACA-5' at 4392 and their complements.

Proximal promoters

Between ZSCAN22 and A1BG: There is one H box (3'-ANANNA-5'): negative direction, negative strand, 3'-ACACGA-5' at 4402. On the positive strand in the negative direction there are 16: 3'-ACAAAA-5' at 4216, 3'-AAAAAA-5' at 4218, 3'-AAAATA-5' at 4220, 3'-AAATAA-5' at 4221, 3'-ATAATA-5' at 4223, 3'-AAAAAA-5' at 4378, 3'-AAAAGA-5' at 4380, 3'-AAAGAA-5' at 4381, 3'-AGAAAA-5' at 4383, 3'-AAAAAA-5'at 4385, 3'-AAAAGA-5' at 4387, 3'-AAAGAA-5' at 4388, 3'-AGAAAA-5' at 4390, 3'-AAAAGA-5' at 4392, 3'-AAAGAA-5' at 4393, and 3'-AGAAAA-5' at 4395, with their complements on the negative strand, negative direction.

Between ZNF497 and A1BG: There is one H box (3'-ANANNA-5'): 3'-AGAGAA-5' at 4387 in the proximal promoter, negative strand, positive direction. There are four: 3'-TCATGT-5' at 4365, 3'-TGGTCT-5' at 4380, 3'-TTCTCT-5' at 4386, and 3'-TGCTGT-5' at 4392 and their complements in the positive direction.

Distal promoters

Between ZSCAN22 and A1BG: 3'-AGAGGA-5' at 3387, 3'-AGAGGA-5' at 3638, and 3'-AGAGGA-5' at 3675. One inverse and its complement 3'-AGGAGA-5' at 3790. There are 13 H boxes: 3'-ACATCA-5' at 2541, 3'-ACACCA-5' at 2659, 3'-ACATTA-5' at 2675, 3'-ATAAAA-5' at 2853, 3'-AAAGTA-5' at 2886, 3'-ACATTA-5' at 3064, 3'-AGATGA-5' at 3159, 3'-ACACCA-5' at 3187, 3'-AGAAGA-5' at 3554, 3'-AGACGA-5' at 3707, 3'-ACACCA-5' at 3811, 3'-ACATTA-5' at 3973, and 3'-ACATCA-5' at 4124.

On the positive strand, negative direction, there are 122 H boxes: 3'-AAAAAA-5' at 2461, 3'-AAAAAA-5' at 2462, 3'-AAAAAA-5' at 2463, 3'-AAAAAA-5' at 2464, 3'-AAAAAA-5' at 2465, 3'-AAAAAA-5' at 2466, 3'-AAAAAA-5' at 2467, 3'-AAAAAA-5' at 2468, 3'-AAAAAA-5' at 2469, 3'-AAAAAA-5' at 2470, 3'-AAAGCA-5' at 2473, 3'-AAAGCA-5' at 2479, 3'-AAACAA-5' at 2484, 3'-AAACAA-5' at 2488, 3'-ACAAAA-5' at 2490, 3'-ATAGTA-5' at 2500, 3'-AGAAAA-5' at 2506, 3'-AAAACA-5' at 2508, 3'-AAACAA-5' at 2509, 3'-AGACCA-5' at 2599, 3'-ATACAA-5' at 2642, 3'-ACAAAA-5' at 2644, 3'-AAATCA-5' at 2648, 3'-ACAGGA-5' at 2690, 3'-AAATCA-5' at 2749, 3'-AGAGCA-5' at 2781, 3'-AAAAGA-5' at 2798, 3'-AAAGAA-5' at 2799, 3'-AAAGAA-5' at 2803, 3'-AGAAAA-5' at 2805, 3'-AAAAGA-5' at 2807, 3'-AGAGAA-5' at 2810, 3'-AGAAGA-5' at 2812, 3'-AGAAAA-5' at 2815, 3'-AAAAAA-5' at 2817, 3'-AAAAGA-5' at 2819, 3'-AAAGAA-5' at 2820, 3'-AGAAAA-5' at 2822, 3'-AAAAGA-5' at 2824, 3'-AGAGAA-5' at 2827, 3'-AGAAGA-5' at 2829, 3'-AGAAAA-5' at 2832, 3'-AAAAAA-5' at 2834, 3'-AAAAGA-5' at 2836, 3'-AAAGAA-5' at 2837, 3'-AGAAAA-5' at 2839, 3'-AAAACA-5' at 2841, 3'-AAACAA-5' at 2842, 3'-AAAATA-5' at 2868, 3'-ATATAA-5' at 2873, 3'-AAAAAA-5' at 2929, 3'-ACATCA-5' at 2941, 3'-ACATTA-5' at 2951, 3'-AAACCA-5' at 2971, 3'-AAAATA-5' at 3012, 3'-AAATAA-5' at 3013, 3'-AAAAAA-5' at 3026, 3'-AAACTA-5' at 3029, 3'-AGACCA-5' at 3122, 3'-AAAACA-5' at 3166, 3'-ACATAA-5' at 3169, 3'-ATAAAA-5' at 3171, 3'-AAATTA-5' at 3175, 3'-AGATCA-5' at 3277, 3'-ACAAGA-5' at 3307, 3'-AGAGCA-5' at 3310, 3'-AAAACA-5' at 3329, 3'-AAACAA-5' at 3330, 3'-AAATAA-5' at 3334, 3'-AAACAA-5' at 3338, 3'-ACAAGA-5' at 3340, 3'-AGAAAA-5' at 3343, 3'-AAACCA-5' at 3365, 3'-AGAGGA-5' at 3387, 3'-ACATCA-5' at 3394, 3'-AGAGAA-5' at 3406, 3'-ACATCA-5' at 3415, 3'-ACATTA-5' at 3436, 3'-ATATTA-5' at 3454, 3'-ATATTA-5' at 3468, 3'-AAACCA-5' at 3484, 3'-AGATCA-5' at 3489, 3'-AAAACA-5' at 3511, 3'-ACACAA-5' at 3514, 3'-ATAATA-5' at 3538, 3'-ACAAGA-5' at 3635, 3'-AGAGGA-5' at 3638, 3'-AAAGAA-5' at 3666, 3'-AGAACA-5' at 3668, 3'-AGAGGA-5' at 3675, 3'-ACAAGA-5' at 3759, 3'-AGACCA-5' at 3762, 3'-ACAAAA-5' at 3767, 3'-AGAGCA-5' at 3913, 3'-AGATGA-5' at 3920, 3'-AGACCA-5' at 4031, 3'-ACAAAA-5' at 4066, 3'-AAAAAA-5' at 4068, 3'-AAAATA-5' at 4070, 3'-AAATAA-5' at 4071, 3'-AAATAA-5' at 4075, 3'-ATAATA-5' at 4077, 3'-ATAGAA-5' at 4080, 3'-AAAGAA-5' at 4084, 3'-AGAAAA-5' at 4086, 3'-AGACAA-5' at 4182, 3'-ACAAAA-5' at 4216, 3'-AAAAAA-5' at 4218, 3'-AAAATA-5' at 4220, 3'-AAATAA-5' at 4221, 3'-ATAATA-5' at 4223, 3'-AAAAAA-5' at 4378, 3'-AAAAGA-5' at 4380, 3'-AAAGAA-5' at 4381, 3'-AGAAAA-5' at 4383, 3'-AAAAAA-5' at 4385, 3'-AAAAGA-5' at 4387, 3'-AAAGAA-5' at 4388, 3'-AGAAAA-5' at 4390, 3'-AAAAGA-5' at 4392, 3'-AAAGAA-5' at 4393, and 3'-AGAAAA-5' at 4395.

Between ZNF497 and A1BG: There are two H boxes after nucleotide number 2300 in the negative strand and positive direction: 3'-ACACCA-5' at 2603 and 3'-ACACCA-5' at 3825.

There are two H boxes after nucleotide number 2300 in the positive strand and positive direction: 3'-ACACCA-5' at 3643 and 3'-ACACCA-5' at 3967.

Regarding 3'-ANANNA-5', on the negative strand, positive direction, there are 25 H boxes: 3'-ATACCA-5' at 2591, 3'-ACACCA-5' at 2603, 3'-ATAGAA-5' at 2628, 3'-AAACCA-5' at 2632, 3'-ACACTA-5'at 2637, 3'-ATATAA-5' at 2662, 3'-AGAGCA-5' at 2704, 3'-AGAGGA-5' at 2793, 3'-AAAGGA-5' at 2829, 3'-ACAGAA-5' at 2838, 3'-AAAGAA-5' at 3066, 3'-AGAACA-5' at 3094, 3'-AGAGCA-5' at 3138, 3'-ACAGCA-5' at 3212, 3'-ACAGTA-5' at 3414, 3'-AGATGA-5' at 3476, 3'-ACAGGA-5' at 3572, 3'-AAAGCA-5' at 3599, 3'-ACATGA-5' at 3708, 3'-ACACCA-5' at 3825, 3'-AAAAGA-5' at 3929, 3'-AGAACA-5' at 4068, 3'-AAATGA-5' at 4094, 3'-ACATCA-5' at 4116, and 3'-ACATGA-5' at 4154.

On the positive strand, positive direction there are 20 H boxes: 3'-AAATAA-5' at 2347, 3'-AAAAAA-5' at 2451, 3'-AAAACA-5' at 2453, 3'-AGACGA-5' at 2976, 3'-AGACCA-5' at 3022, 3'-AGAGAA-5' at 3056, 3'-AGAAGA-5' at 3058, 3'-AGAGGA-5' at 3302, 3'-AGACGA-5' at 3307, 3'-ACAGAA-5' at 3393, 3'-AGAAGA-5' at 3395, 3'-ACAGGA-5' at 3620, 3'-ACACCA-5' at 3643, 3'-AAACCA-5' at 3948, 3'-ACACCA-5' at 3967, 3'-AGAGGA-5' at 4059, 3'-AAAATA-5' at 4122, 3'-AAATCA-5' at 4137, 3'-AAATAA-5' at 4142, and 3'-ATATTA-5' at 4168.

There inverses on the negative strand in the positive direction of 31 H boxes: 3'-ATGACA-5' at 2412, 3'-ACTACA-5' at 2428, 3'-AGGACA-5' at 2460, 3'-ATTATA-5' at 2548, 3'-ACCACA-5' at 2600, 3'-AGGAAA-5' at 2623, 3'-AATAGA-5' at 2627, 3'-ACCACA-5' at 2634, 3'-AACAGA-5' at 2652, 3'-AGCAAA-5' at 2706, 3'-AGGAAA-5' at 2831, 3'-AACACA-5' at 2835, 3'-ATGACA-5' at 2843, 3'-AGAACA-5' at 3094, 3'-AACACA-5' at 3096, 3'-AGGACA-5' at 3131, 3'-ACCAAA-5' at 3175, 3'-AACAGA-5' at 3179, 3'-AGCAGA-5' at 3214, 3'-AGTAGA-5' at 3416, 3'-AATAAA-5' at 3427, 3'-ACCAGA-5' at 3548, 3'-ATGACA-5' at 3569, 3'-AGGAGA-5' at 3650, 3'-AGCACA-5' at 3740, 3'-ACCACA-5' at 3859, 3'-AAAAGA-5' at 3929, 3'-AGAACA-5' at 4068, 3'-ATCATA-5' at 4149, and 3'-ATTATA-5' at 4166.

HNF6s

HY boxes

Initiator elements

Metal responsive elements

STAT5s

TATA boxes

W boxes

See also

References

  1. ↑ 1.0 1.1 HGNC2019 (10 December 2019). "ZSCAN22 zinc finger and SCAN domain containing 22 [ Homo sapiens (human) ]". U.S. National Library of Medicine, 8600 Rockville Pike, Bethesda MD, 20894 USA: National Center for Biotechnology Information. Retrieved 2019-12-18.
  2. ↑ 2.0 2.1 HGNC2019 (10 December 2019). "MIR6806 microRNA 6806 [ Homo sapiens (human) ]". U.S. National Library of Medicine, 8600 Rockville Pike, Bethesda MD, 20894 USA: National Center for Biotechnology Information. Retrieved 2019-12-18.
  3. ↑ 3.0 3.1 RefSeqJuly2008 (10 December 2019). "A1BG alpha-1-B glycoprotein [ Homo sapiens (human) ]". U.S. National Library of Medicine, 8600 Rockville Pike, Bethesda MD, 20894 USA: National Center for Biotechnology Information. Retrieved 2019-12-18.
  4. ↑ Tian M, Cui YZ, Song GH, Zong MJ, Zhou XY, Chen Y, Han JX (2008). "Proteomic analysis identifies MMP-9, DJ-1 and A1BG as overexpressed proteins in pancreatic juice from pancreatic ductal adenocarcinoma patients". BMC Cancer. 8: 241. doi:10.1186/1471-2407-8-241. PMC 2528014. PMID 18706098.
  5. ↑ 5.0 5.1 5.2 5.3 "AceView: A1BG". Retrieved May 11, 2013.
  6. ↑ 6.0 6.1 6.2 6.3 HGNC2019 (10 December 2019). "A1BG-AS1 A1BG antisense RNA 1 [ Homo sapiens (human) ]". U.S. National Library of Medicine, 8600 Rockville Pike, Bethesda MD, 20894 USA: National Center for Biotechnology Information. Retrieved 2019-12-18.
  7. ↑ 7.0 7.1 HGNC2019 (10 December 2019). "ZNF497 zinc finger protein 497 [ Homo sapiens (human) ]". U.S. National Library of Medicine, 8600 Rockville Pike, Bethesda MD, 20894 USA: National Center for Biotechnology Information. Retrieved 2019-12-18.
  8. ↑ 8.0 8.1 HGNC2019 (10 December 2019). "LOC100419840 zinc finger protein 446 pseudogene [ Homo sapiens (human) ]". U.S. National Library of Medicine, 8600 Rockville Pike, Bethesda MD, 20894 USA: National Center for Biotechnology Information. Retrieved 2019-12-18.
  9. ↑ 9.0 9.1 HGNC2019 (10 December 2019). "LOC105372483 uncharacterized LOC105372483 [ Homo sapiens (human) ]". U.S. National Library of Medicine, 8600 Rockville Pike, Bethesda MD, 20894 USA: National Center for Biotechnology Information. Retrieved 2019-12-18.
  10. ↑ 10.0 10.1 HGNC2019 (10 December 2019). "RNA5SP473 RNA, 5S ribosomal pseudogene 473 [ Homo sapiens (human) ]". U.S. National Library of Medicine, 8600 Rockville Pike, Bethesda MD, 20894 USA: National Center for Biotechnology Information. Retrieved 2019-12-18.

External links

{{Phosphate biochemistry}}Template:Sisterlinks

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