regex101: HGVS coding RNA substitution

Pro

Group reference_sequence(?P<reference_sequence>(NM|NR|XM|XR)_[0-9]{4,12}|ENST[0-9]{1,11})

1st Alternative(NM|NR|XM|XR)_[0-9]{4,12}

Group 2(NM|NR|XM|XR)

1st AlternativeNM

NMthe literal text NM (case sensitive)

2nd AlternativeNR

NRthe literal text NR (case sensitive)

3rd AlternativeXM

XMthe literal text XM (case sensitive)

4th AlternativeXR

XRthe literal text XR (case sensitive)

_the literal _ (95₁₀ / 137₈ / 5F₁₆)

Character Class[0-9]{4,12}

{4,12}matches between 4 and 12 characters from the set below:

0-9one character from 0 (48₁₀) to 9 (57₁₀)

2nd AlternativeENST[0-9]{1,11}

ENSTthe literal text ENST (case sensitive)

Character Class[0-9]{1,11}

{1,11}matches between 1 and 11 characters from the set below:

0-9one character from 0 (48₁₀) to 9 (57₁₀)

Group 3(\.(?P<version>([0-9]?[0-9])))?

?repeats the group contents below at most once:

\.the literal . (46₁₀ / 56₈ / 2E₁₆)

Group version(?P<version>([0-9]?[0-9]))

Group 5([0-9]?[0-9])

Character Class[0-9]?

?matches at most one character from the set below:

0-9one character from 0 (48₁₀) to 9 (57₁₀)

Character Class[0-9]

0-9one character from 0 (48₁₀) to 9 (57₁₀)

Group 6(:(?P<prefix>c|n)\.(?P<start>-?[1-9][0-9]{0,7})(?P<start_offset>[+-][1-9][0-9]{0,7})?(?P<ref>[ACTG])>(?P<alt>[ACTG]))?

?repeats the group contents below at most once:

:the literal : (58₁₀ / 72₈ / 3A₁₆)

Group prefix(?P<prefix>c|n)

1st Alternativec

cthe literal c (99₁₀ / 143₈ / 63₁₆) (case sensitive)

2nd Alternativen

nthe literal n (110₁₀ / 156₈ / 6E₁₆) (case sensitive)

\.the literal . (46₁₀ / 56₈ / 2E₁₆)

Group start(?P<start>-?[1-9][0-9]{0,7})

-?optionally matches the literal - (45₁₀ / 55₈ / 2D₁₆)

Character Class[1-9]

1-9one character from 1 (49₁₀) to 9 (57₁₀)

Character Class[0-9]{0,7}

{0,7}matches between 0 and 7 characters from the set below:

0-9one character from 0 (48₁₀) to 9 (57₁₀)

Group start_offset(?P<start_offset>[+-][1-9][0-9]{0,7})?

?repeats the group contents below at most once:

Character Class[+-]

+the literal + (43₁₀ / 53₈ / 2B₁₆)

-the literal - (45₁₀ / 55₈ / 2D₁₆)

Character Class[1-9]

1-9one character from 1 (49₁₀) to 9 (57₁₀)

Character Class[0-9]{0,7}

Group ref(?P<ref>[ACTG])

>the literal > (62₁₀ / 76₈ / 3E₁₆)

Group alt(?P<alt>[ACTG])

Global pattern flags

g modifier: global. Finds all matches instead of stopping after the first

m modifier: multiline. Causes ^ and $ to match the start and end of each line, not only the start and end of the string

25 tokens

Regular Expression

(?P<reference_sequence>(NM|NR|XM|XR)_[0-9]{4,12}|ENST[0-9]{1,11})(\.(?P<version>([0-9]?[0-9])))?(:(?P<prefix>c|n)\.(?P<start>-?[1-9][0-9]{0,7})(?P<start_offset>[+-][1-9][0-9]{0,7})?(?P<ref>[ACTG])>(?P<alt>[ACTG]))?

Unit Tests

There are no unit tests, click to add some.