In this presentation, I talk about the various tools for the submission of DNA or RNA sequences into various sequence databases. The sequence submission tools talked about in this presentation are BankIt, Sequin and Webin.

1. SEQUENCE
SUBMISSION
TOOLS
Name : Rishika Maji
Course: BSc.(H) Zoology
Roll no: 18/154

2. Introduction
What are Sequence submission tools?
Submission Tools are either web-based or stand alone software which aids in submission of new
biological data or updating the already existing sequence data in the various biological
databases available.
 Sequence data is shared between several Databases on a regular basis.
Each sequence or a new data is provided with an accession number after submission into a
particular database which is the same for all databases.

3. Introduction
Types of Sequence Submission Tools
BankIt Sequin Webin tblast2n

4. BankIt
Web-based Sequence
Submission Tool
Tool for submission to
NCBI GenBank
Step by step submission
tool for simple data
Key Features:-

5. BankIt
A single sequence.
A few unrelated sequences or a few sequences with different features
and/or source information.
A large set of sequences with a small number of the same features/source
information.
A small batch of sequences with a small number of features or source
information.
Used to submit data to GenBank of :-
Source : https://www.ncbi.nlm.nih.gov/books/NBK63590/
This is used for submission of genomic DNA (protein coding genes), transcripts (e.g. mRNA,
ncRNA), or small genomes (organelle, plasmid, and phage) from any organism.

6. BankIt Website: Image showing the types of sequences that can be submitted through BankIt.
Source : https://www.ncbi.nlm.nih.gov/WebSub/

7. BankIt
BankIt can only be used to
submit simple types of
biological data.
It can only be used when
the data does not involve
any complicated
annotations.
It cannot be used when
advanced sequence
analysis tools are required.
The following categories of information are necessary for
sequence submission :-
Reference Information- Author’s name, publication.
Source information- organism genus species, taxonomic
lineage, uncultured/cultured.
 Source category- Original sequence/ 3rd party sequence.
 Features- exon, intron, CDS
Sequence in FASTA format and of at least 200
nucleotides.
Source : https://www.ncbi.nlm.nih.gov/WebSub/html/requirements.html

8. Sequin
Stand alone Sequence
Submission Tool
Tool designed by
NCBI
Submission tool for complex
biological sequences
Key Features:-

9. Sequin
Submitting, editing and updating both nucleotide and protein sequence data to NCBI, EMBL and
DDBJ.
Sequin has the capacity to handle long sequences and sets of sequences like :-
segmented entries,
multiple annotations,
population, phylogenetic, and mutation studies.
Sequin is a more sophisticated software and has advanced features like :-
Graphical viewing,
Automatic annotations of complex sequences,
Built-in validation functions for enhanced quality assurance and better editing features.
Is used for :-
Source : https://web.mit.edu/seven/src/ncbi/doc/sequin.htm

10. 1. The First page of Sequin
2. Fill in the Author
details.
3. Select the Sequence
type and Sequence
Format
Image Source : https://web.mit.edu/seven/src/ncbi/doc/sequin.htm

11. 4. Entry of sequence in selected format 5. Annotate the sequence to be submitted.
Image Source : https://web.mit.edu/seven/src/ncbi/doc/sequin.htm

12. Preview of GenBank Flat file format
Preview of Graphical view of the sequence being
submitted.
Image Source : https://web.mit.edu/seven/src/ncbi/doc/sequin.htm

13. Webin
Tool for submission to
EMBL
Submission tool for
complex biological data
Key Features:-
Web-based Sequence
Submission Tool

14. Webin
This submission tool offers submission of single sequences and complex
sequences in bulk.
This is used when rapid submission of sequences are required.
Webin is also an advanced software and can be used for multiple annotations
and phylogenetic studies.
SAR Webin is used for small scale submitters.
Source : https://medias01-web.embl.de/Mediasite/Play/ecd0a40578b246c69c0a5b60373b8fde1d

15. Conclusion
BankIt
Stand Alone software
Tool by NCBI
Supports submission of simple
and complex biological sequences.
Capacity of multiple annotation
and is more advanced.
Is used for segmented sequences,
phylogenetic and population
studies and graphical view.
Sequin Webin
 Web Based tool
Tool by NCBI – GenBank
Simple nucleotide sequence
submission.
Capacity of only simple
annotations.
Cannot be used for
phylogenetic/population
studies.
Web Based tool
Tool by EMBL
Supports rapid submission of
Complex set of sequences.
Capacity of complex and
multiple annotation.
Advanced software used for
phylogenetic and population
studies.