ZRdb KZFP & Repeats
...

LTR_LTR22B1

  • Name
    LTR22B1
  • Repbase
    LTR22B1
  • Type
    LTR
  • Emergence
    28.9 Mya
  • Dfam Id
    DF0000456
Description :

6bp TSDs. Present in baboon rhesus, absent from marmoset.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tgtgggggttcagtcaggntggtgggaaaaattntaagatnnagttataggaaatagacacaaaccttcttggaaggccggaaggttttgcanaagcctcaggatagggttatggctgaaggcagcctaatccttaccttgagttaatagcttagggtagntaacanaggaatgtagaggagtttatctaaatagcttgtttactcatgtggtcctaagaccaacctttgatcatccgcgggtgcatgattgctctctactcgggngcgggggtgggcaatcggcaaccaggttaattaccctctagtggtgtttactcgagacctttgtcatttnncgnnnaatctgtgctgaataaatgcnagcnnngccggctagtcggggccgcggctgcnactctttacagcaccctccttggngtctgtgagcggcccggaccctcagccggactgacaggcanaatatctgtgtcagtgtacgttattcatccgtcgttgggtcagggtctgcgggacggacccccgca
Repeats structure For certain families, there exists a curated collection of TE-derived proteins, which constitutes a non-redundant set. As a results, several families may lack an associated coding sequences directly linked to them. The annotation for these families is obtained from Dfam. :
...
Peak overlapping A ChIP-seq peak of KZFPs that intersects with a certain repeats sequence on the genome. :
# KZFP name Record number KZFP age(Mya) Time correlation with Repeats
1 ZNF253 33 19.6 Moderately correlated
2 ZNF91 18 6.0 Weakly correlated
3 ZNF382 15 99.0 Weakly correlated
4 ZNF486 8 8.6 Weakly correlated
5 ZNF263 4 180.0 Weakly correlated
6 ZNF274 3 99.0 Weakly correlated
7 ZNF75D 3 94.0 Weakly correlated
8 ZNF394 3 99.0 Weakly correlated
9 ZNF793 3 99.0 Weakly correlated
10 ZIM3 2 87.0 Weakly correlated
11 ZNF28 2 28.9 Highly correlated
12 ZNF816 1 28.9 Highly correlated
13 ZNF727 1 19.6 Moderately correlated
14 ZNF93 1 8.6 Weakly correlated
15 ZNF705D 1 28.9 Highly correlated
16 ZNF695 1 28.9 Highly correlated
17 ZNF605 1 99.0 Weakly correlated
18 ZNF562 1 28.9 Highly correlated
19 ZNF554 1 99.0 Weakly correlated
20 ZNF506 1 28.9 Highly correlated
21 ZNF485 1 94.0 Weakly correlated
22 ZNF479 1 6.4 Weakly correlated
23 ZNF302 1 43.0 Weakly correlated
24 ZNF284 1 43.0 Weakly correlated
25 ZNF251 1 94.0 Weakly correlated
26 ZNF140 1 99.0 Weakly correlated
KZFPs Motif in Repeats The motif of KZFPs found by the meme-chip appears in the repeats sequence. :
# KZFP name Record number KZFP age(Mya) Time correlation with Repeats
1 ZNF253 31 19.6 Moderately correlated
2 ZNF75D 2 94.0 Weakly correlated
3 ZIM3 1 87.0 Weakly correlated
4 ZNF140 1 99.0 Weakly correlated
5 ZNF382 1 99.0 Weakly correlated
6 ZNF485 1 94.0 Weakly correlated
7 ZNF506 1 28.9 Highly correlated
8 ZNF816 1 28.9 Highly correlated
9 ZNF91 1 6.0 Weakly correlated
10 ZNF695 1 28.9 Highly correlated
11 ZNF263 1 180.0 Weakly correlated
KZFPs Motif in Repeats Consensus The motif of KZFPs found by the meme-chip can find the corresponding region on the consensus sequence of repeats. :
# KZFP name KZFP age(Mya) Time correlation with Repeats