Table 1.
Exons of TCOF1
| Exon | Position in cDNA, bp | Splice acceptor* 5′ to 3′ | Splice donor* 5′ to 3′ | PCR primers† 5′ to 3′ | PCR size, bp‡Tm, °C | Ref. source |
|---|---|---|---|---|---|---|
| 1 | 5′ UTR– 108 | ggtcgcgggt ATG GCC GAG G§ | G AGC GGC CAG gtaagcgttc | AGGCGGGGCGTGCAGGTA CCGCTGATCTCCACATCTTG | 205 65 | This study |
| 2 | 109–164 | ctctctgcag AAG TGT TTC C | AC TGG CAA CA gtaagtggtg | CCTCCCAAAGTGCTGAGA | 222 | This study |
| GTGTCCGTCCCTACTCCA | 59 | |||||
| 3 | 165–304 | tgtcctgcag A ACC TCA GAG | GCC AAA GCC A gtaagagcct | ATTCTTGTGGAGTTGTTC | 308 | This study |
| CCCCAGGGTCTTTTAGGT | 50 | |||||
| 4 | 305–378 | tttcttgcag CC CCA AGA CT | A AAA GCC AAG gtgagtggga | TCATCTGGCTCCTTTAGCAG | 141 | 15 |
| TAGGCAATAGCTTGGAAGGC | 63 | |||||
| 5 | 379–565 | ttctctgtag GCA GAG ACA G | GCC AAG CCT G gtaagaagtc | TTGGGTTCAGATGCAAGTGG | 297 | 15 |
| AAGTTCTGGGGACTAGGTTC | 59 | |||||
| 6 | 566–639 | cgatcctcag GG ATG GTG TC | A GAC GTG GAG gtaattgcca | TGGAAAGGGAGTCCCTCAGT | 167 | 15 |
| GTTCCTGGAAGGGTTAGAGG | 62 | |||||
| 7 | 640–852 | ttttcaccag GTA AAG GCC T | C CTG CTT CAG gtgaggcctg | GTTTTCACAAGCAGGAGAGC | 313 | This study, 14 |
| AGAAGGCCTTCTGGGGATG | 60 | |||||
| 8 | 853–1047 | gtttctccag GCG AAG GCC T | G CCT GCT CAG gtgaggcaga | GTGTCCTGTGTCTCCTCAC | 298 | 15 |
| TTTAGGCATGGGGCTACTCT | 63 | |||||
| 9 | 1048–1257 | ctcactccag GCG AAG CCT T | T GCA GCT CAG gtgaggctgg | ACCTTTGCCACATCCAGCTC | 328 | 15 |
| TCTTTTGAGGCAGGGCACAG | 65 | |||||
| 10 | 1258–1473 | tgtctcccag GTG AAG CCC T | C CCG GCT CAG gtgaggcccc | ACTCCCTCCCTAATCTTGTC | 278 | This study, 14 |
| GAAAGAGCCTTACAGGAAGG | 60 | |||||
| 11 | 1474–1662 | ctcactccag GAA AAG TCC T | T GCA GCT CAG gtgaggcctg | TACCCTGGGCTCCCTCTC | 295 | This study |
| CCGGGGGTGCTGACTGTG | 64 | |||||
| 12 | 1663–1911 | gtcccctcag GCA AAA CCA G | C GTG GGA CAG gtgaggcctg | GTGGGGCAGAACAGATGG | 408 | This study |
| GGGATGACAAGGGGAAGA | 62 | |||||
| 13 | 1912–2109 | gtcatcccag GCA AAG TCT G | T CCA GCA CAG gtgaggccta | GGAGACACCTCTCTTCCCCT | 257 | This study, 14 |
| GGATGGGCCTGCTCCTTCTA | 58 | |||||
| 14 | 2110–2247 | ctccactcag GTG AAA ACC T | T CCA TCC AAG gcaagtgggg | CAATCTCACCTTCTCCCTCCT | 219 | 15 |
| AACCCTCCACACCTCCTGTG | 62 | |||||
| 15 | 2248–2427 | tgcaattcag GTG AAG CCA C | G CTG GCT CAG gtgaggggga | GGGAGTGGGACCTGAAAGAA | 277 | 15 |
| CCCATGTAGGGGATGATCTC | 56 | |||||
| 16 | 2428–2628 | ctccctccag GCG AAG CCT T | C TCT GCC CAG gtaagacttg | AGATCATCCCCTACATGG | 360 | This study |
| CCCTATACCCCCGTTCTG | 55 | |||||
| 17 | 2629–2815 | gtttttcaag GTG ATT AAA C | TTG ACT CCT G gtgagcgcag | CCCCATCACCTCCTTTCC | 335 | This study |
| CCAGTGTCCTGTCCCTTCTG | 64 | |||||
| 18 | 2816–2952 | tccatttcag GC ATC AGA AC | A GCC ACT CAG gtacctggtg | GCACAGGCCGGTAAATTG | 315 | This study |
| TTGCAGGCCATCCCATCA | 65 | |||||
| 19 | 2953–3066 | ccacccacag GTG TCA AAG A | T TCA AGT GGG gtgagcttgg | CCCCAGCCAGACAGCATC | 320 | This study |
| AGGGAGGCAAACCAAGTG | 64 | |||||
| 20 | 3067–3286 | accgaattag GTT GAC AGT G | CAC ACG CTG G gtgagggtgc | ACTTGCCCTAATTTTTCC | 320 | This study |
| CCACACAACACCCTCTTC | 55 | |||||
| 21 | 3287–3369 | tctccagtag GT CCC ACC CC | G CCA TCC CAG gtaactgcaa | ATGGGGGTGAGGGACCTG | 275 | This study |
| CTGAGGGATCGGGTAGAC | 60 | |||||
| 22 | 3370–3550 | gcttcttcag TCT CTC CTC T | CCT AAA ACA G gtaagttaag | CTCTGTGCCTTGTTGTCC | 387 | This study |
| CACTGCCCTGTCCCTCTG | 63 | |||||
| 23 | 3551–4111 | ctctccatag GT GGA AAA GA | TCC GAC AAG A gtgagtgacc | ACTCCCTGCACCCTCTTC | 364 | This study |
| TGGTCTCCCGATAGCTTC | 60 | |||||
| AGAAAGAAGGTGGTGGAC | 466 | |||||
| TCTACATGGGAGGAATGA | 50 | |||||
| 24 | 4112–4209 | cttcccttag GA AAA AAA GA | G AAG AAA AAG gtagagagtt | ATTGACCCCAGCACTTAG | 248 | This study |
| GAAGGGGGCAGGAACCAG | 60 | |||||
| 25 | 4210–3′ | ctcctcacag AAG AAG ACA G | ccaggcacag gtacgcttcc | GCAGTGGGTGGGGAAAAG | 168 | This study |
| UTR, 4528 | CCACAGGGGACACCAGAG | 60 | ||||
| 26 | 3′ UTR, | cttcccctag ggatttccta | gaggaagggtpolyA¶ | ATGCCAGATTTCATTTTC | 406 | This study |
| 4259-4741 | CTGTGGAGCAAGGTGGTG | 50 | ||||
| AGTGACCTCCTCTCCTTC | 411 | |||||
| TAGTTTAGATGCCACCTC | 52 |
UTR, untranslated region.
*
Uppercase letters are coding sequences. Lowercase letters are noncoding sequences. Spaces in sequences indicate exon/intron boundaries or reading frames.
†
Primer pair sequences are noted for PCR amplification of each exon. Two pairs of PCR primers are required to amplify the entire length of exons 23 or 26.
‡
The PCR product size and the annealing temperature used for PCR amplification are noted.
§
This is the sequence prior to and including the translation start site. The A nucleotide of the ATG is numbered 1.
¶
This is the sequence prior to where the poly(A) tract is added.