NRL star Jarryd Hayne has been accused of raping a woman while he was in the US playing NFL, court documents reveal.

The code-hopper, who had a short stint with the San Francisco 49ers franchise, is accused of engaging in non-consensual sexual intercourse with a woman identified as "Ms V" in December 2015, according to court documents filed in the Santa Clara County court and seen by 9news.com.au.

The District Attorney's office reviewed the case and later rejected it based on insufficient evidence, the documents reveal.

Hayne this evening issued a statement "unequivocally and vehemently" denying the allegations.

NRL star Jarryd Hayne has been accused of rape in a civil suit filed in San Francisco, during his time with the 49ers NFL franchise. (AAP)

READ THE COURT DOCUMENTS IN FULL BELOW

The woman is seeking a jury trial and compensation "for the emotional pain, anguish and severe distress" the alleged incident caused.

The suit includes complaints of sexual battery, gender violence, intentional infliction of emotional distress, and negligence.

According to the civil suit, the plaintiff grew up in the Santa Clara area and had met several acquaintances of the defendant Hayne.

The documents state that on December 21, 2015, Ms V was out with some friends during the day and attended a portion of a 49ers football game in the afternoon.

Hayne made a splash when he left his NRL career behind to join the San Francisco 49ers. (AAP)

After the game she attended a restaurant with friends where she drank, before going to another bar where she became "heavily intoxicated".

A friend of Hayne's had been texting Ms V and the footballer later attended the same bar.

During a police interview after the event, a friend of Ms V's said "she had never seen the Plaintiff so intoxicated".

Ms V then alleges she and Hayne took an Uber back to his home, where she was taken to a bedroom. She encountered a "man with the Defendant's build coming towards her".

"The man put his hands on her shoulders and flipped her around so she was no longer facing him," the suit states.

The documents allege the man instructed her "no kissing" and shortly after she experienced an "extremely sharp pain in her vagina".

"The next morning (the woman) awoke in the same room and in the same bed," the documents state.

"She was naked, draped in a single sheet, and still in significant vaginal pain."

The suit claims the victim was a virgin at the time of the alleged encounter, was afraid to come forward for several months and eventually sought medical treatment.

The documents claim Hayne later admitted to the woman they had "hooked up" and told her they had shared consensual sexual activity.

Hayne in training during the recent Rugby League World Cup. (AAP)

According to the suit, the victim reported the rape to the San Jose Police Department in May 2016.

The report to police came in the same month Hayne announced his shock departure from the 49ers to unsuccessfully chase a spot on Fiji's rugby sevens team for the Rio Olympics.

There is no suggestion Hayne quit his NFL dream because of the police investigation.

Hayne has just returned to Sydney after a trip to Jerusalem where he was baptised in the Jordan River.

He recently announced a move back to his former club Parramatta Eels after one-and-a-half seasons with Gold Coast Titans, the club he linked with after departing the NFL.

The NRL today said Hayne was free to play in the wake of the allegation.

"We note that police in the United States did not proceed with any criminal proceedings, but we will review the information available and continue to monitor the civil case," the code said in a statement.

Last night, Ramy Qutami from Madison Marcus Law Firm issued a statement on behalf of Hayne.

"Mr Hayne and his management are aware of recent media speculation in relation to a civil complaint filed in the United States of America making certain allegations in relation to an event which allegedly occurred in 2015 whilst playing for the San Francisco 49ers.

"Mr Hayne has not been served with any proceedings or formal complaint relating to the incident.

"Mr Hayne previously addressed a complaint made to the District Attorney's office in the County of Santa Clara, California in 2016 and the District Attorney did not proceed any further with the matter due to insufficient evidence to substantiate the allegations. Mr Hayne provided all reasonable assistance to the District Attorney with that investigation.

"Mr Hayne unequivocally and vehemently denies the allegations which are the subject of the civil complaint. Mr Hayne will not be making any further comment in relation to this matter."

The Eels confirmed they were not aware of the allegations before today.

"The Club has been made aware of serious allegations regarding Jarryd Hayne during his time with the San Francisco 49ers," club chairman Max Donnelly said.

"We were unaware of these allegations until they were made public today.

"As with any legal matter, it is important that we follow due process and ensure that we review all relevant information available, including giving Jarryd the opportunity to respond."

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