Web document 16.2. Pairwise alignment between DNA from beta globin (NM_000518) and Homo sapiens hemoglobin, beta pseudogene 1 (HBBP1), non-coding RNA (NR_001589). Performed at the NCBI BLAST website.

 

This document contains the results from two searches:
(1) blastn of the DNA against the pseudogene sequence
(2) blastx of the beta globin protein (subject NP_000509) against the translated pseudogene (query NR_001589).

 

(1) blastn result

 
 
>ref|NR_001589.1| GeoGene info Homo sapiens hemoglobin, beta pseudogene 1 (HBBP1), non-coding 
RNA
Length=660
 
 GENE ID: 3044 HBBP1 | hemoglobin, beta pseudogene 1 [Homo sapiens]
(10 or fewer PubMed links)
 
 Score =  251 bits (278),  Expect = 6e-71
 Identities = 365/507 (71%), Gaps = 15/507 (2%)
 Strand=Plus/Plus
 
Query  6    TGCTTCTGACACAACTGTGTTCACTAGCAACCTCAAACA---GACACCATGGTGCATCTG  62
            |||||||| | || ||||| |||| || || |||  | |   |||||  | |||||| | 
Sbjct  5    TGCTTCTGGCTCATCTGTGATCACCAGGAAACTCCCAGATCTGACACTGTAGTGCATTTC  64
 
Query  63   ACTCCTGAGGAGAAGTCTGCCGTTACTGCCCTGTGGGGCAAGGTGAACGTGGATGAAGTT  122
            ||| ||||  ||||| |||| |  ||   ||||||  ||||||| || ||| |  | | |
Sbjct  65   ACTGCTGACAAGAAGGCTGCTGCCACCAGCCTGTGAAGCAAGGTTAAGGTG-AGAAGGCT  123
 
Query  123  GGTGGTGAGGCCCTGGGCAGGCTGCTGGTGGTCTACCCTTGGACCCAGAGGTTCTTTGAG  182
            || ||||||   |||||||| || ||||| |||||||| |||||| |||||| |||||| 
Sbjct  124  GGAGGTGAGATTCTGGGCAGTCTCCTGGTTGTCTACCCATGGACCTAGAGGTACTTTGAA  183
 
Query  183  TCCTTTGGGGATCTGTCCACTC-CTGATGCTGTTATGGGCAACCCTAAGGTGAAGGCTCA  241
               |||||  |||||  | ||  ||| |||  | ||||||||||| || || ||||| ||
Sbjct  184  AGTTTTGGATATCTGGGCTCTGACTG-TGCAATAATGGGCAACCCCAAAGTCAAGGCACA  242
 
Query  242  TGGCAAGAAAGTGCTCGGTGCCTTTAGTGATGGCCTG----GCTCACCTGGACAACCTCA  297
            ||||||||| |||||     ||||  |  | |  |||    ||||||  |||  ||||||
Sbjct  243  TGGCAAGAAGGTGCTGATCTCCTTCGGAAAAG--CTGTTATGCTCAC--GGATGACCTCA  298
 
Query  298  AGGGCACCTTTGCCACACTGAGTGAGCTGCACTGTGACAAGCTGCACGTGGATCCTGAGA  357
            | ||||||||||| ||||||||||| ||||||||| |||||||||||||||| |||||||
Sbjct  299  AAGGCACCTTTGCTACACTGAGTGACCTGCACTGTAACAAGCTGCACGTGGACCCTGAGA  358
 
Query  358  ACTTCAGGCTCCTGGGCAACGTGCTGGTCTGTGTGCTGGCCCATCACTTTGGCAAAGAAT  417
            |||||  |||| | ||||||||| |  |   |||  ||||    |||||  || | || |
Sbjct  359  ACTTCCTGCTCTTAGGCAACGTGATATTGATTGTTTTGGCAACCCACTTCAGCGAGGATT  418
 
Query  418  TCACCCCACCAGTGCAGGCTGCCTATCAGAAAGTGGTGGCTGGTGTGGCTAATGCCCTGG  477
            | |||| ||   | |||||| | |  ||| || |      || ||||| ||||||  | |
Sbjct  419  TTACCCTACAGATACAGGCTTCTTGGCAGTAACTAACAAATGCTGTGGTTAATGCTGTAG  478
 
Query  478  CCCACAAGTATCACTAAGCTCGCTTTC  504
            |||||||| | |||| || || || ||
Sbjct  479  CCCACAAG-ACCACTGAGTTCCCTGTC  504

 

 

(2) blastx result (header edited for clarity)

 

 

>ref|NP_000509.1| UniGene infoGene infoPubChem BioAssay Info beta globin [Homo sapiens]

Length=147

 

 GENE ID: 3043 HBB | hemoglobin, beta [Homo sapiens] (Over 100 PubMed links)

 

 Score =  163 bits (412),  Expect = 2e-45

 Identities = 79/124 (63%), Positives = 98/124 (79%), Gaps = 0/124 (0%)

 Frame = +1

 

Query  115  EKAGGEILGSLLVVYPWT*RYFESFGYLGSDCAIMGNPKVKAHGKKVLISFGKAVMLTDD  294

            ++ GGE LG LLVVYPWT R+FESFG L +  A+MGNPKVKAHGKKVL +F   +   D+

Sbjct  22   DEVGGEALGRLLVVYPWTQRFFESFGDLSTPDAVMGNPKVKAHGKKVLGAFSDGLAHLDN  81

 

Query  295  LKGTFATLSDLHCNKLHVDPENFLLLGNVILIVLATHFSEDFTLQIQASWQ*LTNAVVNA  474

            LKGTFATLS+LHC+KLHVDPENF LLGNV++ VLA HF ++FT  +QA++Q +   V NA

Sbjct  82   LKGTFATLSELHCDKLHVDPENFRLLGNVLVCVLAHHFGKEFTPPVQAAYQKVVAGVANA  141

 

Query  475  VAHK  486

            +AHK

Sbjct  142  LAHK  145